202510-Spring 2025-BINF-3121-001-Statistics for Bioinformatics

202510-Spring 2025-BINF-3121-001-Statistics for Bioinformatics

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Textbook

Textbook Textbook

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Textbook 1008572  

• Attachment

  The Art of R Programming The Art of R Programming       1

        attachment 6857456 0

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Learn R - Introduction to R features and syntax

Learn R - Introduction to R features and syntax Learn R - Introduction to R features and syntax

Prerequisites:

Module Completed Module In Progress Module Locked

Learn R - Introduction to R features and syntax 963335  

• Assignment

  1 - Do : R basics with Swirl interactive tutorial 1 - Do : R basics with Swirl interactive tutorial 60     1

        assignment 6518560 1

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• Attachment

  2025-01-13-Intro-and-Hwk1.pdf 2025-01-13-Intro-and-Hwk1.pdf       2

        attachment 6750812 0

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Learn R - Markdown

Learn R - Markdown Learn R - Markdown

Prerequisites:

Module Completed Module In Progress Module Locked

Learn R - Markdown 963336  

• Assignment

  2 - Do : Make a Markdown document 2 - Do : Make a Markdown document 60     3

        assignment 6518565 1

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• External Url

  Getting Started with R Markdown — Guide and Cheatsheet Getting Started with R Markdown — Guide and Cheatsheet       4

        external_url 6518566 0

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• External Url

  Literate Programming : Introduction to Markdown from Prof. Danielle Navarro Literate Programming : Introduction to Markdown from Prof. Danielle Navarro       5

        external_url 6518567 0

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• External Url

  Literate Programming : Curated and hyperlinked abstracts from literature about literate programming Literate Programming : Curated and hyperlinked abstracts from literature about literate programming       6

        external_url 6518568 0

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• External Url

  Data Visualization: Scatterplots Youtube Walkthrough Data Visualization: Scatterplots Youtube Walkthrough       7

        external_url 6518569 0

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• Attachment

  Demo.Rmd Demo.Rmd       8

        attachment 6780812 0

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• Attachment

  Demo.html Demo.html       9

        attachment 6780813 0

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Learn R - Vectors, Lists and Looping functions

Learn R - Vectors, Lists and Looping functions Learn R - Vectors, Lists and Looping functions

Prerequisites:

Module Completed Module In Progress Module Locked

Learn R - Vectors, Lists and Looping functions 963337  

• Assignment

  3 - Do : Vectors, Lists and Looping functions 3 - Do : Vectors, Lists and Looping functions 100     2

        assignment 6518571 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   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
• Attachment

  2025-02-03-VectorsListsLoopingFunctionsHW3.pdf 2025-02-03-VectorsListsLoopingFunctionsHW3.pdf       3

        attachment 6785445 0

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Learn Why - Reproducible research matters

Learn Why - Reproducible research matters Learn Why - Reproducible research matters

Prerequisites:

Module Completed Module In Progress Module Locked

Learn Why - Reproducible research matters 1002352  

• Assignment

  3.5 - Do : Learn about reproducible research and research ethics 3.5 - Do : Learn about reproducible research and research ethics 100     1

        assignment 6793867 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   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
• Page

  Watch: Dr. Keith Baggerly describes how he and his colleagues discovered a problem affecting patients seeking cancer care Watch: Dr. Keith Baggerly describes how he and his colleagues discovered a problem affecting patients seeking cancer care       2

        wiki_page 6793646 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   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
• External Url

  Read: The five pillars of computational reproducibility: bioinformatics and beyond (literate programming section) Read: The five pillars of computational reproducibility: bioinformatics and beyond (literate programming section)       3

        external_url 6793105 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   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
• External Url

  Read: Officials Silenced Med Student Who Reported Trouble (Cancer Letter, January 9, 2015) Read: Officials Silenced Med Student Who Reported Trouble (Cancer Letter, January 9, 2015)       4

        external_url 6793108 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   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
• External Url

  Read: On being a scientist: A guide to responsible conduct of research, 3rd edition Read: On being a scientist: A guide to responsible conduct of research, 3rd edition       5

        external_url 6793810 0

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Learn R - Matrices, Plots, P hacking

Learn R - Matrices, Plots, P hacking Learn R - Matrices, Plots, P hacking

Prerequisites:

Module Completed Module In Progress Module Locked

Learn R - Matrices, Plots, P hacking 963338  

• Assignment

  4 - Do : Matrices, plots, p hacking 4 - Do : Matrices, plots, p hacking 140     4

        assignment 6518576 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   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
• Attachment

  2025-02-17-SubsettingSubcripting.pdf 2025-02-17-SubsettingSubcripting.pdf       5

        attachment 6799895 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   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

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Learn about single-cell RNA-Seq experiments

Learn about single-cell RNA-Seq experiments Learn about single-cell RNA-Seq experiments

Prerequisites:

Module Completed Module In Progress Module Locked

Learn about single-cell RNA-Seq experiments 1003564  

• Assignment

  4.5 - Do: Learn about single-cell RNA-Seq experiments and data 4.5 - Do: Learn about single-cell RNA-Seq experiments and data 140     1

        assignment 6806387 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   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

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Learn R - S3 and S4 classes, Object-oriented programming in R

Learn R - S3 and S4 classes, Object-oriented programming in R Learn R - S3 and S4 classes, Object-oriented programming in R

Prerequisites:

Module Completed Module In Progress Module Locked

Learn R - S3 and S4 classes, Object-oriented programming in R 963339  

• Attachment

  2025-03-17-OOP-in-R-S3S4Classes.pdf 2025-03-17-OOP-in-R-S3S4Classes.pdf       1

        attachment 6820689 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   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
• Attachment

  9-ObjectOrientedProgramming.pdf 9-ObjectOrientedProgramming.pdf       2

        attachment 6518580 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   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
• Assignment

  5 - Do : S3 classes, S4 classes 5 - Do : S3 classes, S4 classes 50     3

        assignment 6518579 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   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

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Learn or explain complex data analysis library - Seurat

Learn or explain complex data analysis library - Seurat Learn or explain complex data analysis library - Seurat

Prerequisites:

Module Completed Module In Progress Module Locked

Learn or explain complex data analysis library - Seurat 963341  

• Assignment

  6 - Do : Learn the Seurat library for single-cell RNA-Seq data analysis and visualization 6 - Do : Learn the Seurat library for single-cell RNA-Seq data analysis and visualization 60     2

        assignment 6518587 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   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
• Attachment

  2025-03-24-single-cell-rna-seq.pdf 2025-03-24-single-cell-rna-seq.pdf       3

        attachment 6827489 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   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
• Attachment

  2025-03-31-Markdown-Walkthrough.pdf 2025-03-31-Markdown-Walkthrough.pdf       4

        attachment 6832657 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   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

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Project - Answer a question about biology using R and data

Project - Answer a question about biology using R and data Project - Answer a question about biology using R and data

Prerequisites:

Module Completed Module In Progress Module Locked

Project - Answer a question about biology using R and data 963342  

• Attachment

  2025-04-07-Projects.pdf 2025-04-07-Projects.pdf       1

        attachment 6841265 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   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
• Assignment

  6.25 - Do : Choose Term Project 6.25 - Do : Choose Term Project 10     2

        assignment 6518588 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   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
• Assignment

  6.5 - Do : First draft of Term Project 6.5 - Do : First draft of Term Project 15     3

        assignment 6518589 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   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
• Assignment

  7 - Do : Term project 7 - Do : Term project 60     4

        assignment 6518590 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   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

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Dimensionality Reduction and Hierarchical Clustering

Dimensionality Reduction and Hierarchical Clustering Dimensionality Reduction and Hierarchical Clustering

Prerequisites:

Module Completed Module In Progress Module Locked

Dimensionality Reduction and Hierarchical Clustering 1007578  

• Assignment

  8 - Do : Swirl tutorials on dimension reduction and clustering 8 - Do : Swirl tutorials on dimension reduction and clustering 20     1

        assignment 6848411 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   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
• Attachment

  dimensionReduction.Rmd dimensionReduction.Rmd       2

        attachment 6860489 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   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
• Attachment

  dimensionReduction.html dimensionReduction.html       3

        attachment 6860490 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   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
• Attachment

  2025-04-21-DimensionalityReduction.pdf 2025-04-21-DimensionalityReduction.pdf       4

        attachment 6860735 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   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
• Attachment

  face.rda face.rda       5

        attachment 6861082 0

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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   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

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  [ Select Module ] Textbook Learn R - Introduction to R features and syntax Learn R - Markdown Learn R - Vectors, Lists and Looping functions Learn Why - Reproducible research matters Learn R - Matrices, Plots, P hacking Learn about single-cell RNA-Seq experiments Learn R - S3 and S4 classes, Object-oriented programming in R Learn or explain complex data analysis library - Seurat Project - Answer a question about biology using R and data Dimensionality Reduction and Hierarchical Clustering

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