hbctraining/scRNA-seq

Issues

• Intergration pipeline led to background expression on TSNE

  #35 opened 4 years ago by nasjr08
  0

• How to split Seurat objec according to sample or condition

  #34 opened 4 years ago by learnyoung1990
  0

• Error in CellsByIdentities(object = object, cells = cells)

  #33 opened 4 years ago by luenhchang
  1

• Error in calculating proportion of reads mapping to mitochondrial transcripts

  #32 opened 5 years ago by allllany
  0

• Update packages needed for installation

  #27 opened 5 years ago by jihe-liu
  3

• use readMM() to convert standard matrix into a sparse matrix

  #30 opened 5 years ago by vasighi
  2

• If pooled, separate the cells into the 8 samples

  #12 opened 5 years ago by mistrm82
  3

• update the elbow plot

  #24 opened 5 years ago by mistrm82
  2

• Accessing raw data after normalization

  #28 opened 5 years ago by marypiper
  0

• QCMetrics error in DGE lesson

  #31 opened 5 years ago by marypiper
  0

• update images in marker identification

  #26 opened 5 years ago by rkhetani
  5

• Warning messages in RunPCA()

  #1 opened 5 years ago by marypiper
  2

• add a link to QC to show bad data

  #14 opened 5 years ago by mistrm82
  1

• update the answer key for QC

  #25 opened 5 years ago by mistrm82
  1

• QC lesson: change the seurat object name?

  #23 opened 5 years ago by jihe-liu
  1

• Note on sc nuclear RNA-seq

  #15 opened 5 years ago by mistrm82
  1

• Having two 2-day workshops

  #3 opened 5 years ago by mistrm82
  0

• finalized decision tree

  #21 opened 5 years ago by marypiper
  1

• base decision tree

  #4 opened 5 years ago by mistrm82
  0

• need a new FindMarkers lesson

  #7 opened 5 years ago by mistrm82
  0

• how many cells do we expect?

  #10 opened 5 years ago by mistrm82
  4

• Add “label=T” to the plots for FeaturePlot()

  #6 opened 5 years ago by mistrm82
  1

• compress R objects for faster download

  #16 opened 5 years ago by mistrm82
  1

• take out reticulate from install instructions

  #17 opened 5 years ago by mistrm82
  1

• updating teaching laptop for UMAP

  #18 opened 5 years ago by mistrm82
  1

• Check option to exit survey for 'very satisfied'

  #20 opened 5 years ago by marypiper
  1

• update integration lesson with notes from Satija lecture

  #8 opened 5 years ago by mistrm82
  0

• split the clustering markdown

  #13 opened 5 years ago by mistrm82
  0

• start the analysis with integration

  #2 opened 5 years ago by mistrm82
  0

• Remove all TSNE plots

  #22 opened 5 years ago by marypiper
  1

• split Intro markdown

  #9 opened 5 years ago by mistrm82
  0

• troubleshooting slide deck

  #5 opened 5 years ago by mistrm82
  0

• 8 pooled samples versus 1 sample?

  #11 opened 5 years ago by mistrm82
  1