kevinrue/OBDS_slides

Issues

• singlecell bioconductor and droplets qc: Potential iSEE code for demonstration using droplets qc data and outputs

  #314 opened 5 months ago by liezeltamon
  0

• singlecell/bioconductor: buildSNNGraph(transposed = TRUE) behaviour

  #222 opened 5 months ago by liezeltamon
  1

• The impact of package selection and versioning on single-cell RNA-seq analysis

  #307 opened 5 months ago by kevinrue
  0

• singlecell droplets Making DoubletFinder compatible with Seurat v5

  #283 opened 6 months ago by liezeltamon
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• Source of info for Seurat v5 layers

  #272 opened 7 months ago by kevinrue
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• where could we list recurrent advice?

  #270 opened 7 months ago by kevinrue
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• seurat day 2+

  #269 opened 7 months ago by kevinrue
  1

• seurat day 1 solution

  #266 opened 7 months ago by kevinrue
  1

• seurat day 1 - rewrite exercise points

  #265 opened 7 months ago by kevinrue
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• seurat day 2 exercises: origin of seurat_after_qc.rds ?

  #263 opened 7 months ago by kevinrue
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• use vst.flavor="v2" in SCTransform calls in solutions

  #220 opened 7 months ago by kevinrue
  1

• seurat day 2 slide 'Comparison example' - reproducible figure

  #262 opened 7 months ago by kevinrue
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• seurat day 2 SCT solution - SCTransform now default to v2

  #261 opened 7 months ago by kevinrue
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• seurat day 2 solution - CreateSeuratObject warning

  #260 opened 7 months ago by kevinrue
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• confusing hidden comments in seurat day 2 slides

  #258 opened 7 months ago by kevinrue
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• Install immunogenomics/presto to speed up FindAllMarkers

  #256 opened 7 months ago by kevinrue
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• fastMNN vs mnnCorrect link

  #253 opened 8 months ago by kevinrue
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• linux: To do

  #178 opened a year ago by liezeltamon
  1

• [single cell bioc] Update list of dim red functions

  #224 opened a year ago by kevinrue
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• r/bioconductor slide 24 needs updated example data

  #211 opened a year ago by kevinrue
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• base r day 2: clarify workspace management exercise

  #206 opened a year ago by kevinrue
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• Additional code written during base R lessons

  #202 opened a year ago by kevinrue
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• Test R solution notebooks

  #182 opened a year ago by kevinrue
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• replace some PNGs by code in DESeq2 vignette

  #176 opened a year ago by kevinrue
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• lt_linux_introduction: Review genomics talk outline; make it more like an overview of the whole linux course

  #173 opened a year ago by liezeltamon
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• illustrate paired statistics

  #70 opened 3 years ago by kevinrue
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• replace 'albrecht' by 'kevinrue' in daily lesson folder structure

  #65 opened 2 years ago by kevinrue
  1

• update R version req to 4.1

  #64 opened 2 years ago by kevinrue
  1

• Download all online images locally

  #29 opened 2 years ago by kevinrue
  1

• Show command 'git branch -d' in the slides

  #119 opened 2 years ago by kevinrue
  1

• Update ssh-keygen type

  #120 opened 2 years ago by kevinrue
  1

• git: add screenshot of SSH link to clone repo

  #128 opened 2 years ago by kevinrue
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• Update references to functions migrated to scuttle in lesson 'single cell bioconductor'

  #86 opened 3 years ago by kevinrue
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• Add plots and illustrations to lesson 'single cell bioconductor'

  #85 opened 3 years ago by kevinrue
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• bioconductor: add a slide that lists core Bioconductor publications

  #67 opened 3 years ago by kevinrue
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• Machine learning in R: is all the exercise code mentioned in slides?

  #26 opened 4 years ago by kevinrue
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• Full stop at the end of bullet points

  #24 opened 4 years ago by kevinrue
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• exercise slides

  #28 opened 4 years ago by kevinrue
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• git: reorder slides to make exercises flow better

  #13 opened 4 years ago by kevinrue
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• git: bad examples of git reset --soft and --hard

  #12 opened 4 years ago by kevinrue
  1

• ggplot2: refer to the environment created in r_renv slides

  #27 opened 4 years ago by kevinrue
  1

• ggplot2: pick better data set for histogram exercise

  #30 opened 4 years ago by kevinrue
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• Use 'setup_data.R' from dim. red. and clustering as template for others

  #14 opened 4 years ago by kevinrue
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• Version Control and Git

  #1 opened 4 years ago by kevinrue
  1