Code

Add subread featurecounts#11

Code

Merged

rcannood merged 29 commits intomainviash-hub/biobox:mainfrom add_subread_featurecountsviash-hub/biobox:add_subread_featurecountsCopy head branch name to clipboardJan 31, 2024

+720

Commits

Commits on Jan 29, 2024

• Add test data

  sainirmayi

  committed
  5100735

  Copy full SHA for 5100735

• featureCounts help

  sainirmayi

  committed
  30d2b64

  Copy full SHA for 30d2b64

• get test data

  sainirmayi

  committed
  edd09b9

  Copy full SHA for edd09b9

• config and sript

  sainirmayi

  committed
  9758ed6

  Copy full SHA for 9758ed6

• test script

  sainirmayi

  committed
  e4f8775

  Copy full SHA for e4f8775

• add to changelog

  sainirmayi

  committed
  dc38ec0

  Copy full SHA for dc38ec0

• update description

  sainirmayi

  committed
  22d02ec

  Copy full SHA for 22d02ec

• move out of subreads directory and fix typos

  sainirmayi

  committed
  986bd18

  Copy full SHA for 986bd18

Commits on Jan 30, 2024

• Merge remote-tracking branch 'origin/main' into add_subread_featurecounts

  rcannood

  committed
  1cde15b

  Copy full SHA for 1cde15b

• Merge branch 'main' into add_subread_featurecounts

  sainirmayi

  authored
  d649058

  Copy full SHA for d649058

• add PR number

  sainirmayi

  committed
  177671b

  Copy full SHA for 177671b

• Use full argument names in descriptions

  sainirmayi

  committed
  db0b97b

  Copy full SHA for db0b97b

• update

  sainirmayi

  committed
  c144548

  Copy full SHA for c144548

Commits on Jan 31, 2024

• Update output arguments

  Show description for 53c72e7
  

  sainirmayi

  and

  rcannood

  authored
  53c72e7

  Copy full SHA for 53c72e7

• remove tmpdir argument

  Show description for 14fc14c
  

  sainirmayi

  and

  rcannood

  authored
  14fc14c

  Copy full SHA for 14fc14c

• use $meta_tmp_dir

  Show description for aedb01d
  

  sainirmayi

  and

  rcannood

  authored
  aedb01d

  Copy full SHA for aedb01d

• add quotes

  Show description for 0812ec9
  

  sainirmayi

  and

  rcannood

  authored
  0812ec9

  Copy full SHA for 0812ec9

• rename r_path to results_path

  sainirmayi

  committed
  09b1a3b

  Copy full SHA for 09b1a3b

• modified arguments

  sainirmayi

  committed
  af58534

  Copy full SHA for af58534

• fix incorrect argument in description

  sainirmayi

  committed
  829fa49

  Copy full SHA for 829fa49

• fix --output_counts argument

  sainirmayi

  committed
  0b5a1d4

  Copy full SHA for 0b5a1d4

• use multiple_sep

  Show description for 2cbf8aa
  

  sainirmayi

  and

  rcannood

  authored
  2cbf8aa

  Copy full SHA for 2cbf8aa

• Update src/featurecounts/config.vsh.yaml

  Show description for 3dbc8c4
  

  sainirmayi

  and

  rcannood

  authored
  3dbc8c4

  Copy full SHA for 3dbc8c4

• use example instead of default

  sainirmayi

  committed
  09433d2

  Copy full SHA for 09433d2

• minor edits

  rcannood

  committed
  dc3e8b9

  Copy full SHA for dc3e8b9

• rename files to verify that parameters work as intended

  rcannood

  committed
  69c2b45

  Copy full SHA for 69c2b45

• Automatically add the -J flag if --output_junctions was specified

  rcannood

  committed
  6a1274a

  Copy full SHA for 6a1274a

• fix typo

  rcannood

  committed
  0cb3a1d

  Copy full SHA for 0cb3a1d

• rename arguments and let featureCounts first output to a tempdir

  rcannood

  committed
  a1bc3a2

  Copy full SHA for a1bc3a2