carpentries-incubator/bioc-rnaseq

Issues

• Add authors

  #111 opened 4 months ago by jdrnevich
  0

• Add > PCs to iSEE example OR add glimmaMDS

  #109 opened 4 months ago by jdrnevich
  0

• Should we switch to TidySummarizedExperiment?

  #108 opened 4 months ago by jdrnevich
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• Put subheadings in Episode 1

  #107 opened 4 months ago by jdrnevich
  0

• Replace UCSC with NCBI

  #106 opened 4 months ago by jdrnevich
  0

• Update life cycle stage?

  #101 opened 9 months ago by tobyhodges
  1

• Add links to bioc-project

  #98 opened a year ago by lgatto
  0

• Add links to public FastQC reports

  #87 opened a year ago by csoneson
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• Save assembled SE object in output/ rather than in data/

  #89 opened a year ago by csoneson
  0

• Change color palette in barplot

  #90 opened a year ago by csoneson
  0

• Add workflow diagram

  #94 opened a year ago by csoneson
  0

• Mention volcano plots

  #95 opened a year ago by csoneson
  0

• Add iSEE-related challenges

  #91 opened a year ago by csoneson
  0

• Add more exercises to gene set analysis episode

  #92 opened a year ago by csoneson
  0

• Add intro to GRanges, or create an unranged SE

  #88 opened a year ago by csoneson
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• suggest episode re-order to 5. DE analysis, 6. Exploration of design matrices, 7. Re-visit practice data analysis, 8. Gene set

  #73 opened a year ago by jdrnevich
  1

• Manually update workflow files.

  #45 opened a year ago by zkamvar
  1

• Update Episode 2: "RStudio Project and Experimental Data"

  #44 opened a year ago by ghar1821
  2

• Collapse 4-5 Intro/Set up sections into 3

  #38 opened a year ago by jdrnevich
  7

• paragraph introduction to the workshop

  #39 opened a year ago by jdrnevich
  1

• Contributing to episode 08-gene-set-analysis

  #28 opened a year ago by csoneson
  4

• Contributing to episode 07-differential-expression

  #27 opened a year ago by csoneson
  0

• Contributing to episode 06-exploratory-qc

  #26 opened a year ago by csoneson
  0

• Contributing to episode 05-import-annotate

  #25 opened a year ago by csoneson
  0

• Contributing to episode 04-experimental-design

  #24 opened a year ago by csoneson
  1

• Contributing to episode 03-setup

  #23 opened a year ago by csoneson
  1

• Contributing to episode 02-intro-to-rnaseq

  #22 opened a year ago by csoneson
  0

• Contributing to episode 01-introduction

  #21 opened a year ago by csoneson
  1

• 'Theme & variations' exercise - change significance threshold

  #5 opened a year ago by csoneson
  0

• Showcase how to explore RNA-Seq data and output

  #4 opened a year ago by cvanderaa
  0

• Add exercises to differential expression episode

  #12 opened a year ago by csoneson
  0

• Transition to workbench

  #15 opened a year ago by csoneson
  11

• Add exercises to the exploratory data analysis episode

  #10 opened a year ago by csoneson
  0

• Add explanatory text to differential expression episode

  #11 opened a year ago by csoneson
  0

• Add exercises for experimental design episode

  #8 opened a year ago by csoneson
  0

• Add explanatory text to data import episode

  #9 opened a year ago by csoneson
  0

• Provide an overview of RNA-seq

  #6 opened a year ago by csoneson
  0

• Add explanatory text to experimental design episode

  #7 opened a year ago by csoneson
  0

• Expand episode 1 to include experimental design & batch effects

  #71 opened a year ago by jdrnevich
  2

• Extras to add to episode 4

  #72 opened a year ago by jdrnevich
  0

• To Do before BioC2023 workshop

  #58 opened a year ago by jdrnevich
  3

• Populate "Download Lesson Handout"

  #70 opened a year ago by jdrnevich
  0

• Not recognizing .Rmd files in episodes directory?

  #43 opened 2 years ago by jdrnevich
  5

• Standard workflow for the "Introduction to RNA-seq" episode

  #16 opened 2 years ago by almeidasilvaf
  4

• FIXME pages don't exist

  #1 opened 3 years ago by jffpviana
  0