Course Modules

Week 1 - R Introduction - Jan 14

Week 1 - R Introduction - Jan 14
Module Completed Module In Progress Module Locked
Week 1 - R Introduction - Jan 14 269816   true
  • Context Module Sub Header
    Slides & Notes
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Introduction to the class External Url
    Introduction to the class Introduction to the class
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Introduction to R and RStudio External Url
    Introduction to R and RStudio Introduction to R and RStudio
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Assignments
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Install RStudio, R Assignment
    Install RStudio, R Install RStudio, R
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • How to: Install R and RStudio External Url
    How to: Install R and RStudio How to: Install R and RStudio
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Stanford OLI Probstat - Reading & Quiz
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Stanford OLI Probstat - Part 1 - Exploratory Data Analysis Assignment
    Stanford OLI Probstat - Part 1 - Exploratory Data Analysis Stanford OLI Probstat - Part 1 - Exploratory Data Analysis
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Quiz - Stanford OLI Probstat - Part 1 - Exploratory Data Analysis Quiz
    Quiz - Stanford OLI Probstat - Part 1 - Exploratory Data Analysis Quiz - Stanford OLI Probstat - Part 1 - Exploratory Data Analysis
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Week 2 - Functions & Vectors - Jan 21 (no class - MLK holiday)

Week 2 - Functions & Vectors - Jan 21 (no class - MLK holiday)
Module Completed Module In Progress Module Locked
Week 2 - Functions & Vectors - Jan 21 (no class - MLK holiday) 269817   true
  • Context Module Sub Header
    At home: R tutorial and quiz
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • R Tutorial - Functions & vectors Assignment
    R Tutorial - Functions & vectors R Tutorial - Functions & vectors
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Quiz - R Tutorial - Functions & vectors Quiz
    Quiz - R Tutorial - Functions & vectors Quiz - R Tutorial - Functions & vectors
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Stanford OLI ProbStat Reading and Quiz
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Stanford OLI Probstat - Part 2 - Probability 1 Assignment
    Stanford OLI Probstat - Part 2 - Probability 1 Stanford OLI Probstat - Part 2 - Probability 1
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Quiz - Stanford OLI Probstat - Part 2 - Probability 1 Quiz
    Quiz - Stanford OLI Probstat - Part 2 - Probability 1 Quiz - Stanford OLI Probstat - Part 2 - Probability 1
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Week 3 - Matrices & data frames - Jan 28

Week 3 - Matrices & data frames - Jan 28
Module Completed Module In Progress Module Locked
Week 3 - Matrices & data frames - Jan 28 269818    
  • Context Module Sub Header
    In-class: R tutorial and quiz
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • In-class practice & review: Functions and Vectors Attachment
    In-class practice & review: Functions and Vectors In-class practice & review: Functions and Vectors
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • R tutorial - Matrices & data frames Assignment
    R tutorial - Matrices & data frames R tutorial - Matrices & data frames
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Quiz - R Tutorial - Matrices & data frames Quiz
    Quiz - R Tutorial - Matrices & data frames Quiz - R Tutorial - Matrices & data frames
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Assignment
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Quiz: Using R for exploratory data analysis Quiz
    Quiz: Using R for exploratory data analysis Quiz: Using R for exploratory data analysis
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Week 4 - Reading & analyzing data - Feb 4

Week 4 - Reading & analyzing data - Feb 4
Module Completed Module In Progress Module Locked
Week 4 - Reading & analyzing data - Feb 4 269819    
  • Context Module Sub Header
    In-class: R tutorial and quiz
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • R Tutorial - Reading & analyzing data Assignment
    R Tutorial - Reading & analyzing data R Tutorial - Reading & analyzing data
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Quiz - R Tutorial - Reading & analyzing data Quiz
    Quiz - R Tutorial - Reading & analyzing data Quiz - R Tutorial - Reading & analyzing data
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Assignments
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Install knitr, upload a knitted Markdown Assignment
    Install knitr, upload a knitted Markdown Install knitr, upload a knitted Markdown
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Stanford OLI ProbStat Reading and Quiz
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Stanford OLI Probstat - Part 3 - Probability 2 Assignment
    Stanford OLI Probstat - Part 3 - Probability 2 Stanford OLI Probstat - Part 3 - Probability 2
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Quiz - Stanford OLI Probstat - Part 3 - Probability 2 Quiz
    Quiz - Stanford OLI Probstat - Part 3 - Probability 2 Quiz - Stanford OLI Probstat - Part 3 - Probability 2
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Week 5 - Writing reports with Markdown - Feb 11

Week 5 - Writing reports with Markdown - Feb 11
Module Completed Module In Progress Module Locked
Week 5 - Writing reports with Markdown - Feb 11 269820    
  • Context Module Sub Header
    Notes and Slides
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Data Analysis Report - What to include, how to write it Page
    Data Analysis Report - What to include, how to write it Data Analysis Report - What to include, how to write it
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Background Info: BED file format for describing gene models Attachment
    Background Info: BED file format for describing gene models Background Info: BED file format for describing gene models
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Data Analysis
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Distribution of gene lengths in two Brassicas: Camelina sativa and Arabidopsis thaliana Assignment
    Distribution of gene lengths in two Brassicas: Camelina sativa and Arabidopsis thaliana Distribution of gene lengths in two Brassicas: Camelina sativa and Arabidopsis thaliana
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • howToReadBedFiles.R Attachment
    howToReadBedFiles.R howToReadBedFiles.R
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Example Markdown
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Example Markdown and knitted Markdown Page
    Example Markdown and knitted Markdown Example Markdown and knitted Markdown
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Week 6 - Conditional probability - Feb 18

Week 6 - Conditional probability - Feb 18
Module Completed Module In Progress Module Locked
Week 6 - Conditional probability - Feb 18 269821    
  • Writing functions in R - getProbDisease Assignment
    Writing functions in R - getProbDisease Writing functions in R - getProbDisease
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Quiz: Probability of disease given a positive test result Quiz
    Quiz: Probability of disease given a positive test result Quiz: Probability of disease given a positive test result
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Week 7 - Sample means - Feb 25

Week 7 - Sample means - Feb 25
Module Completed Module In Progress Module Locked
Week 7 - Sample means - Feb 25 269822    
  • Context Module Sub Header
    In-class assignment
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Using R built-in distribution functions to solve sample mean problems Assignment
    Using R built-in distribution functions to solve sample mean problems Using R built-in distribution functions to solve sample mean problems
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Example.zip Attachment
    Example.zip Example.zip
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Notes and Slides
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • UsingBuiltinProbDistributions.pdf Attachment
    UsingBuiltinProbDistributions.pdf UsingBuiltinProbDistributions.pdf
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • 07-PointEstimators.pptx Attachment
    07-PointEstimators.pptx 07-PointEstimators.pptx
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Stanford OLI ProbStat Reading and Quiz
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Quiz - Stanford OLI Probstat - Part 4 - Inference 1 Quiz
    Quiz - Stanford OLI Probstat - Part 4 - Inference 1 Quiz - Stanford OLI Probstat - Part 4 - Inference 1
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Stanford OLI Probstat - Part 4 - Inference 1 Assignment
    Stanford OLI Probstat - Part 4 - Inference 1 Stanford OLI Probstat - Part 4 - Inference 1
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Data sets (.RData files) for Quiz Page
    Data sets (.RData files) for Quiz Data sets (.RData files) for Quiz
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Reading
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • All significance tests are the same Assignment
    All significance tests are the same All significance tests are the same
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Week 8 - Inference I - Mar 4 (no class - spring break)

Week 8 - Inference I - Mar 4 (no class - spring break)
Module Completed Module In Progress Module Locked
Week 8 - Inference I - Mar 4 (no class - spring break) 269823    
  • Context Module Sub Header
    Notes and Slides
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Z score test Attachment
    Z score test Z score test
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • One sample t test Attachment
    One sample t test One sample t test
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    Two sample t test - paired & unpaired Two sample t test - paired & unpaired
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  • DrunkDrivers.txt Attachment
    DrunkDrivers.txt DrunkDrivers.txt
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    Stanford OLI ProbStat Reading and Quiz
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  • Stanford OLI Probstat - Part 5 - Inference 2 Assignment
    Stanford OLI Probstat - Part 5 - Inference 2 Stanford OLI Probstat - Part 5 - Inference 2
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  • Quiz -Stanford OLI Probstat - Part 5 - Inference 2 Quiz
    Quiz -Stanford OLI Probstat - Part 5 - Inference 2 Quiz -Stanford OLI Probstat - Part 5 - Inference 2
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    Reading
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  • Check your understanding of a p value Assignment
    Check your understanding of a p value Check your understanding of a p value
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Week 9 - Inference II - Mar 11

Week 9 - Inference II - Mar 11
Module Completed Module In Progress Module Locked
Week 9 - Inference II - Mar 11 269824    
  • Context Module Sub Header
    Notes & Slides
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  • Slides: Comparing groups - Background for ProbStat Inference II Quiz Page
    Slides: Comparing groups - Background for ProbStat Inference II Quiz Slides: Comparing groups - Background for ProbStat Inference II Quiz
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  • Comparing 3+ groups - ANOVA Attachment
    Comparing 3+ groups - ANOVA Comparing 3+ groups - ANOVA
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  • Mid-term review and practice Page
    Mid-term review and practice Mid-term review and practice
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  • Midterm Review Problems .docx Attachment
    Midterm Review Problems .docx Midterm Review Problems .docx
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    Example Data
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  • flicker.txt Attachment
    flicker.txt flicker.txt
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    Code
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  • Inference1.Rmd Attachment
    Inference1.Rmd Inference1.Rmd
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  • FlickerTesting.Rmd Attachment
    FlickerTesting.Rmd FlickerTesting.Rmd
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Week 10 - Midterm Exam - Mar 18

Week 10 - Midterm Exam - Mar 18
Module Completed Module In Progress Module Locked
Week 10 - Midterm Exam - Mar 18 269825    
  • Context Module Sub Header
    Stanford OLI Probstat
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  • Stanford ProbStat Final Quiz Quiz
    Stanford ProbStat Final Quiz Stanford ProbStat Final Quiz
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    Assignments
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  • Install and test limma, affy Page
    Install and test limma, affy Install and test limma, affy
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  • Install and test affy, limma Assignment
    Install and test affy, limma Install and test affy, limma
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Week 11 - DNA microarrays & limma - Mar 25

Week 11 - DNA microarrays & limma - Mar 25
Module Completed Module In Progress Module Locked
Week 11 - DNA microarrays & limma - Mar 25 269826    
  • Context Module Sub Header
    Data Analysis - In Class
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  • DNA microarray data analysis example - programmed cell death experiment Page
    DNA microarray data analysis example - programmed cell death experiment DNA microarray data analysis example - programmed cell death experiment
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  • Quiz - DNA microarray data analysis example - programmed cell death experiment Quiz
    Quiz - DNA microarray data analysis example - programmed cell death experiment Quiz - DNA microarray data analysis example - programmed cell death experiment
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  • Context Module Sub Header
    Background
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  • DNA microarrays - background reading Page
    DNA microarrays - background reading DNA microarrays - background reading
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  • Links to resources Page
    Links to resources Links to resources
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Week 12 - Linear models - Apr 1

Week 12 - Linear models - Apr 1
Module Completed Module In Progress Module Locked
Week 12 - Linear models - Apr 1 269827    
  • Context Module Sub Header
    Background - watch & do before class
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  • Linear models introduction Page
    Linear models introduction Linear models introduction
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  • Quiz on background materials - linear models Quiz
    Quiz on background materials - linear models Quiz on background materials - linear models
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  • Context Module Sub Header
    Data analysis - in class
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  • Files needed for today Page
    Files needed for today Files needed for today
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  • Optional Assignment - Linear models practice Markdown Assignment
    Optional Assignment - Linear models practice Markdown Optional Assignment - Linear models practice Markdown
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  • Context Module Sub Header
    Resources mentioned in class
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  • Prof. Kasper Hansen's video explaining S4 classes in Bioconductor External Url
    Prof. Kasper Hansen's video explaining S4 classes in Bioconductor Prof. Kasper Hansen's video explaining S4 classes in Bioconductor
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Video: Linear Models as Matrix Multiplication I (Prof. Irizarry) External Url
    Video: Linear Models as Matrix Multiplication I (Prof. Irizarry) Video: Linear Models as Matrix Multiplication I (Prof. Irizarry)
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Video: Linear Models as Matrix Multiplication II (Prof. Irizarry) External Url
    Video: Linear Models as Matrix Multiplication II (Prof. Irizarry) Video: Linear Models as Matrix Multiplication II (Prof. Irizarry)
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Expressing design formula in R (Prof. Irizarry) External Url
    Expressing design formula in R (Prof. Irizarry) Expressing design formula in R (Prof. Irizarry)
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Prof. Kasper Hansen's free course "Bioconductor for Genomic Data Science" External Url
    Prof. Kasper Hansen's free course "Bioconductor for Genomic Data Science" Prof. Kasper Hansen's free course "Bioconductor for Genomic Data Science"
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Factors in R (UC Berkeley State 133 class) External Url
    Factors in R (UC Berkeley State 133 class) Factors in R (UC Berkeley State 133 class)
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Week 13 - RNA-Seq - Apr 8

Week 13 - RNA-Seq - Apr 8
Module Completed Module In Progress Module Locked
Week 13 - RNA-Seq - Apr 8 269828    
  • Context Module Sub Header
    Data Analysis
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  • RNA-Seq slides and notes Page
    RNA-Seq slides and notes RNA-Seq slides and notes
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  • Link to R code Page
    Link to R code Link to R code
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  • counts.txt Attachment
    counts.txt counts.txt
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  • samples.txt Attachment
    samples.txt samples.txt
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  • gene_description.txt Attachment
    gene_description.txt gene_description.txt
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  • RNA-Seq - Compare expression between sample types Quiz
    RNA-Seq - Compare expression between sample types RNA-Seq - Compare expression between sample types
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Context Module Sub Header
    Project options
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  • Data Analysis Project - Student's choice Assignment
    Data Analysis Project - Student's choice Data Analysis Project - Student's choice
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  • Use co-expression analysis to find new players in a biological process (stomata development) Page
    Use co-expression analysis to find new players in a biological process (stomata development) Use co-expression analysis to find new players in a biological process (stomata development)
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Which genes are expressed everywhere and never change? Page
    Which genes are expressed everywhere and never change? Which genes are expressed everywhere and never change?
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  • Find the most highly-expressed genes for biotechnology applications Page
    Find the most highly-expressed genes for biotechnology applications Find the most highly-expressed genes for biotechnology applications
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Can the R subread package process RNA-Seq data on a consumer-grade computer? Page
    Can the R subread package process RNA-Seq data on a consumer-grade computer? Can the R subread package process RNA-Seq data on a consumer-grade computer?
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete
  • Reproduce a published microarray study of dicamba (an herbicide) and compare results Page
    Reproduce a published microarray study of dicamba (an herbicide) and compare results Reproduce a published microarray study of dicamba (an herbicide) and compare results
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Week 14 - Data analysis project - Apr 15

Week 14 - Data analysis project - Apr 15
Module Completed Module In Progress Module Locked
Week 14 - Data analysis project - Apr 15 269829    
  • Choose a project Assignment
    Choose a project Choose a project
    Score at least   Must score at least   to complete this module item Scored at least   Module item has been completed by scoring at least   View Must view in order to complete this module item Viewed Module item has been viewed and is complete Mark done Must mark this module item done in order to complete Marked done Module item marked as done and is complete Contribute Must contribute to this module item to complete it Contributed Contributed to this module item and is complete Submit Must submit this module item to complete it Submitted Module item submitted and is complete

Week 15 - In-class data analysis - Apr 22

Week 15 - In-class data analysis - Apr 22
Module Completed Module In Progress Module Locked
Week 15 - In-class data analysis - Apr 22 269830    

Week 16 - In-class data analysis - Apr 29

Week 16 - In-class data analysis - Apr 29
Module Completed Module In Progress Module Locked
Week 16 - In-class data analysis - Apr 29 269831    
 
minimum score must view must submit must contribute