COMBINE-lab/simpleaf

Issues

• [feature request] 10x chemistry autodetection

  #158 opened 5 months ago by rob-p
  0

• Indexing error: piscem index failed to build succesfully ExitStatus(unix_wait_status(132))

  #133 opened 9 months ago by lichtobergo
  17

• sequencing saturation

  #157 opened 5 months ago by wangjiawen2013
  4

• Error: invalid base: 0067

  #137 opened 7 months ago by holmrenser
  6

• Retaining sample origin information

  #136 opened 8 months ago by pakiessling
  2

• [question]: maximum available parallelism and number of threads

  #135 opened 9 months ago by tamuanand
  1

• Error: alevin-fry generate-permit-list failed with exit status ExitStatus(unix_wait_status(25856))

  #134 opened 9 months ago by lichtobergo
  19

• 0 cells returned

  #132 opened 10 months ago by mousepixels
  4

• consider making piscem a dependency in the simpleaf conda env

  #118 opened a year ago by rpolicastro
  5

• 10x genomics FFPE chemistry

  #131 opened a year ago by wangjiawen2013
  0

• indexing error: there is no k-mer that belongs to a list of size > 128 and <= 256

  #126 opened a year ago by rpolicastro
  9

• permit list download failure

  #128 opened a year ago by rpolicastro
  8

• Cell-by-isoform matrix

  #115 opened a year ago by sameer-aryal
  2

• Rework workflow implementation

  #110 opened a year ago by rob-p
  2

• Title: Issues with awk/gawk Command Errors in Step 5 of Data Processing Workflow in 10x-feature-barcode-antibody.jsonnet

  #107 opened a year ago by wanisajad
  13

• BD data

  #105 opened a year ago by cathalgking
  4

• Too many obs

  #106 opened a year ago by partrita
  3

• Processing SplitSeq / ParseBio data with simpleaf

  #104 opened a year ago by wmacnair
  3

• How to obtain simpleaf previous versions

  #102 opened a year ago by sdr08
  1

• "Error: piscem mapping failed with exit status ExitStatus(unix_wait_status(139))"

  #99 opened a year ago by wmacnair
  54

• CHM13 Index

  #100 opened a year ago by AndrewSkelton
  0

• Issues with indexing concatenated gtf file

  #98 opened a year ago by wmacnair
  4

• Use of --explicit-pl vs --unfiltered-pl to get equivalent of raw_feature_bc_matrix.h5

  #92 opened a year ago by wmacnair
  4

• numpy has no attribute long

  #91 opened 2 years ago by thisisamirv
  13

• Using simpleaf quant offline

  #88 opened 2 years ago by jagoor93
  2

• simpleaf index issues around pyroe

  #80 opened 2 years ago by rpolicastro
  19

• If pyroe encounters an error, simpleaf prevents debugging by swallowing stderr

  #43 opened 2 years ago by robsyme-seqera
  6

• libgcc-ng >=12 needed for installation

  #42 opened 2 years ago by chjp
  2

• Printing the command being run when encountering an error.

  #32 opened 2 years ago by DongzeHE
  4