Course Modules: 201910-Spring 2019-BINF-3121-001-Statistics for Bioinformatics

Week 1 - R Introduction - Jan 14

Week 1 - R Introduction - Jan 14 Week 1 - R Introduction - Jan 14

Context Module Sub Header

Slides & Notes 1

context_module_sub_header 1564712 0

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Introduction to the class External Url

Introduction to the class Introduction to the class 2

external_url 1564713 0

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Introduction to R and RStudio External Url

Introduction to R and RStudio Introduction to R and RStudio 3

external_url 1564714 0

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 4

context_module_sub_header 1564715 0

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 5 5

assignment 1564716 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
How to: Install R and RStudio External Url

How to: Install R and RStudio How to: Install R and RStudio 6

external_url 1564717 0

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 10

context_module_sub_header 1564718 0

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 11

assignment 1564719 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 1 - Exploratory Data Analysis Quiz

Quiz - Stanford OLI Probstat - Part 1 - Exploratory Data Analysis Quiz - Stanford OLI Probstat - Part 1 - Exploratory Data Analysis 21 12

quiz 1564720 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 2 - Functions & Vectors - Jan 21 (no class - MLK holiday)

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

Context Module Sub Header

At home: R tutorial and quiz 1

context_module_sub_header 1564721 0

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 2

assignment 1564722 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 - R Tutorial - Functions & vectors Quiz

Quiz - R Tutorial - Functions & vectors Quiz - R Tutorial - Functions & vectors 13 3

quiz 1564723 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
Context Module Sub Header

Stanford OLI ProbStat Reading and Quiz 5

context_module_sub_header 1564725 0

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 6

assignment 1564726 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 40 7

quiz 1564727 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 Week 3 - Matrices & data frames - Jan 28

Context Module Sub Header

In-class: R tutorial and quiz 1

context_module_sub_header 1564728 0

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 2

attachment 1564724 0

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 3

assignment 1564729 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 - R Tutorial - Matrices & data frames Quiz

Quiz - R Tutorial - Matrices & data frames Quiz - R Tutorial - Matrices & data frames 6 4

quiz 1564730 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
Context Module Sub Header

Assignment 5

context_module_sub_header 1564731 0

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 45 6

quiz 1564732 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 4 - Reading & analyzing data - Feb 4

Week 4 - Reading & analyzing data - Feb 4 Week 4 - Reading & analyzing data - Feb 4

Context Module Sub Header

In-class: R tutorial and quiz 1

context_module_sub_header 1564733 0

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 2

assignment 1564734 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 - R Tutorial - Reading & analyzing data Quiz

Quiz - R Tutorial - Reading & analyzing data Quiz - R Tutorial - Reading & analyzing data 11 3

quiz 1564735 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
Context Module Sub Header

Assignments 4

context_module_sub_header 1564736 0

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 5 5

assignment 1564737 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
Context Module Sub Header

Stanford OLI ProbStat Reading and Quiz 8

context_module_sub_header 1564738 0

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 9

assignment 1564739 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 3 - Probability 2 Quiz

Quiz - Stanford OLI Probstat - Part 3 - Probability 2 Quiz - Stanford OLI Probstat - Part 3 - Probability 2 41 10

quiz 1564740 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 5 - Writing reports with Markdown - Feb 11

Week 5 - Writing reports with Markdown - Feb 11 Week 5 - Writing reports with Markdown - Feb 11

Context Module Sub Header

Notes and Slides 1

context_module_sub_header 1564741 0

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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 2

wiki_page 1614065 0

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 3

attachment 1564743 0

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 4

context_module_sub_header 1564744 0

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 50 5

assignment 1564745 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
howToReadBedFiles.R Attachment

howToReadBedFiles.R howToReadBedFiles.R 6

attachment 1564746 0

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 7

context_module_sub_header 1564747 0

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 8

wiki_page 1614066 0

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 Week 6 - Conditional probability - Feb 18

Writing functions in R - getProbDisease Assignment

Writing functions in R - getProbDisease Writing functions in R - getProbDisease 20 1

assignment 1564749 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: 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 20 3

quiz 1747546 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 7 - Sample means - Feb 25

Week 7 - Sample means - Feb 25 Week 7 - Sample means - Feb 25

Context Module Sub Header

In-class assignment 1

context_module_sub_header 1564751 0

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 40 2

assignment 1564752 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
Example.zip Attachment

Example.zip Example.zip 3

attachment 1564753 0

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 4

context_module_sub_header 1564754 0

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 5

attachment 1564755 0

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 6

attachment 1564756 0

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 7

context_module_sub_header 1564757 0

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 42 8

quiz 1564758 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 9

assignment 1564759 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 10

wiki_page 1564760 0

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 11

context_module_sub_header 1564761 0

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 0 12

assignment 1564762 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 8 - Inference I - Mar 4 (no class - spring break)

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

Context Module Sub Header

Notes and Slides 1

context_module_sub_header 1564763 0

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 2

attachment 1564764 0

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One sample t test Attachment

One sample t test One sample t test 3

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Two sample t test - paired & unpaired Attachment

Two sample t test - paired & unpaired Two sample t test - paired & unpaired 4

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Context Module Sub Header

Example Data Sets 5

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DrunkDrivers.txt Attachment

DrunkDrivers.txt DrunkDrivers.txt 6

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Context Module Sub Header

Stanford OLI ProbStat Reading and Quiz 7

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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 8

assignment 1564770 1

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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 45 9

quiz 1564771 1

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Context Module Sub Header

Reading 10

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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 0 11

assignment 1564781 1

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Week 9 - Inference II - Mar 11

Week 9 - Inference II - Mar 11 Week 9 - Inference II - Mar 11

Context Module Sub Header

Notes & Slides 1

context_module_sub_header 1564772 0

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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 2

wiki_page 1758669 0

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Comparing 3+ groups - ANOVA Attachment

Comparing 3+ groups - ANOVA Comparing 3+ groups - ANOVA 3

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Mid-term review and practice Page

Mid-term review and practice Mid-term review and practice 4

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Midterm Review Problems .docx Attachment

Midterm Review Problems .docx Midterm Review Problems .docx 5

attachment 1564776 0

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Context Module Sub Header

Example Data 7

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flicker.txt Attachment

flicker.txt flicker.txt 8

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Context Module Sub Header

Code 9

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Inference1.Rmd Attachment

Inference1.Rmd Inference1.Rmd 10

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FlickerTesting.Rmd Attachment

FlickerTesting.Rmd FlickerTesting.Rmd 11

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Week 10 - Midterm Exam - Mar 18

Week 10 - Midterm Exam - Mar 18 Week 10 - Midterm Exam - Mar 18

Context Module Sub Header

Stanford OLI Probstat 1

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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 ProbStat Final Quiz Quiz

Stanford ProbStat Final Quiz Stanford ProbStat Final Quiz 145 2

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Context Module Sub Header

Assignments 4

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Install and test limma, affy Page

Install and test limma, affy Install and test limma, affy 5

wiki_page 1564788 0

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Install and test affy, limma Assignment

Install and test affy, limma Install and test affy, limma 10 6

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Week 11 - DNA microarrays & limma - Mar 25

Week 11 - DNA microarrays & limma - Mar 25 Week 11 - DNA microarrays & limma - Mar 25

Context Module Sub Header

Data Analysis - In Class 1

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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
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 2

wiki_page 1564791 0

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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 25 3

quiz 1564792 1

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Context Module Sub Header

Background 6

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DNA microarrays - background reading Page

DNA microarrays - background reading DNA microarrays - background reading 7

wiki_page 1564794 0

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Links to resources Page

Links to resources Links to resources 8

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Week 12 - Linear models - Apr 1

Week 12 - Linear models - Apr 1 Week 12 - Linear models - Apr 1

Context Module Sub Header

Background - watch & do before class 1

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Linear models introduction Page

Linear models introduction Linear models introduction 2

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Quiz on background materials - linear models Quiz

Quiz on background materials - linear models Quiz on background materials - linear models 36 3

quiz 1564798 1

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Context Module Sub Header

Data analysis - in class 4

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Files needed for today Page

Files needed for today Files needed for today 5

wiki_page 1564800 0

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Optional Assignment - Linear models practice Markdown Assignment

Optional Assignment - Linear models practice Markdown Optional Assignment - Linear models practice Markdown 0 6

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Context Module Sub Header

Resources mentioned in class 7

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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 8

external_url 1564803 0

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) 9

external_url 1564804 0

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) 10

external_url 1564805 0

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Expressing design formula in R (Prof. Irizarry) External Url

Expressing design formula in R (Prof. Irizarry) Expressing design formula in R (Prof. Irizarry) 11

external_url 1564806 0

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" 12

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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) 13

external_url 1564808 0

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Week 13 - RNA-Seq - Apr 8

Week 13 - RNA-Seq - Apr 8 Week 13 - RNA-Seq - Apr 8

Context Module Sub Header

Data Analysis 1

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RNA-Seq slides and notes Page

RNA-Seq slides and notes RNA-Seq slides and notes 2

wiki_page 1778998 0

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Link to R code Page

Link to R code Link to R code 3

wiki_page 1564811 0

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counts.txt Attachment

counts.txt counts.txt 4

attachment 1564812 0

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samples.txt Attachment

samples.txt samples.txt 5

attachment 1564813 0

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gene_description.txt Attachment

gene_description.txt gene_description.txt 6

attachment 1564814 0

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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 26 7

quiz 1782281 1

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Context Module Sub Header

Project options 9

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Data Analysis Project - Student's choice Assignment

Data Analysis Project - Student's choice Data Analysis Project - Student's choice 200 10

assignment 1564817 1

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Use co-expression analysis to find new players in a biological process (stomata development) Page

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wiki_page 1564818 0

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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? 12

wiki_page 1564819 0

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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 13

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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? 14

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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 15

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Week 14 - Data analysis project - Apr 15

Week 14 - Data analysis project - Apr 15 Week 14 - Data analysis project - Apr 15

Choose a project Assignment

Choose a project Choose a project 10 1

assignment 1564823 1

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Week 15 - In-class data analysis - Apr 22

Week 15 - In-class data analysis - Apr 22 Week 15 - In-class data analysis - Apr 22

Week 16 - In-class data analysis - Apr 29

Week 16 - In-class data analysis - Apr 29 Week 16 - In-class data analysis - Apr 29