Commits · 634fd8a33ca329daeabccc81e764c58b616d8e70 · GUDMAP_RBK / RNA-seq

Feb 23, 2021
- Replace species inference with seqwho · 634fd8a3
  Gervaise Henry authored 4 years ago
  
  634fd8a3
Feb 19, 2021
- Utilize seq type inference from seqwho · 3c5f30fb
  Gervaise Henry authored 4 years ago
  
  3c5f30fb
Feb 09, 2021
- Start implementing seqwho · 34803354
  Gervaise Henry authored 4 years ago
  
  34803354
Feb 04, 2021
- Fix · b507ecd7
  Gervaise Henry authored 4 years ago
  
  b507ecd7
Jan 29, 2021
- Correct reference var name · 9cccaef7
  Gervaise Henry authored 4 years ago
  
  9cccaef7
- Fix bool spike override in getRef · 3235c1c4
  Gervaise Henry authored 4 years ago
  
  3235c1c4
- Fix getRef for spike · ced21083
  Gervaise Henry authored 4 years ago
  
  ced21083
Jan 28, 2021
- Move spike/stranded override to infer (like species), not submitter · 0bb07de4
  Gervaise Henry authored 4 years ago
  
  0bb07de4
- Convert blank nan submitted metadata to No value · 37a1345e
  Gervaise Henry authored 4 years ago
  
  37a1345e
- Try excaping tabs for metadata override for report · b1cdf286
  Gervaise Henry authored 4 years ago
  
  b1cdf286
- Fix metadata echo · 329dc950
  Gervaise Henry authored 4 years ago
  
  329dc950
Jan 27, 2021
- Fix stranded override · 04c81525
  Gervaise Henry authored 4 years ago
  
  04c81525
- Fix aggrQC if brackets · 8a1299d4
  Gervaise Henry authored 4 years ago
  
  8a1299d4
- Fix params · 502328a7
  Gervaise Henry authored 4 years ago
  
  502328a7
- Make tracking upload option · df96927b
  Gervaise Henry authored 4 years ago
  
  df96927b
- Fix stranded variable · 09dd7af3
  Gervaise Henry authored 4 years ago
  
  09dd7af3
Jan 26, 2021
- Fix bracket · 14b8fc1d
  Gervaise Henry authored 4 years ago
  
  14b8fc1d
- Fix echo line · 4f9bc352
  Gervaise Henry authored 4 years ago
  
  4f9bc352
- Remove extra quote · 6b085ad6
  Gervaise Henry authored 4 years ago
  
  6b085ad6
- Fix new force var names · 57529bc9
  Gervaise Henry authored 4 years ago
  
  57529bc9
- Remove unnecessary excape · a3d8f200
  Gervaise Henry authored 4 years ago
  
  a3d8f200
- Add missing excapes · e7024f45
  Gervaise Henry authored 4 years ago
  
  e7024f45
- Fix qutes to echo · 4d50fe8f
  Gervaise Henry authored 4 years ago
  
  4d50fe8f
- Add qutes to echo · c03c60c9
  Gervaise Henry authored 4 years ago
  
  c03c60c9
- Add force params for stranded and spike · 59cb654a
  Gervaise Henry authored 4 years ago
  
  59cb654a
- Double excape slash · 0511ac1a
  Gervaise Henry authored 4 years ago
  
  0511ac1a
- Excape bash vars · b390a5e5
  Gervaise Henry authored 4 years ago
  
  b390a5e5
- URLify hatrac location for outputBag · b15b2201
  Gervaise Henry authored 4 years ago
  
  b15b2201
- Fix getRef use of new spike values · ddc9ef20
  Gervaise Henry authored 4 years ago
  
  ddc9ef20
Jan 25, 2021
- Change logic for uploadOutputBag · a503d1e2
  Gervaise Henry authored 4 years ago
  
  a503d1e2
- Merge data error pre-Execution run · 77410b76
  Gervaise Henry authored 4 years ago
  
  77410b76
- Add blank mRNA_QC on data fail · f4e88555
  Gervaise Henry authored 4 years ago
  
  f4e88555
- Remove unnecessary RID output parsing · 03f13a82
  Gervaise Henry authored 4 years ago
  
  03f13a82
- Convert strandedness from yes/no to t/f · b9798355
  Gervaise Henry authored 4 years ago
  
  b9798355
- Allow Single Read for backwards compatibility · ca8d3a9c
  Gervaise Henry authored 4 years ago
  
  ca8d3a9c
Jan 20, 2021
- Change Single Read to Single End · 797354e0
  Gervaise Henry authored 4 years ago
  
  797354e0
- Update errors in readme · ef06aea5
  Gervaise Henry authored 4 years ago
  
  ef06aea5
- Use 1 less process for samtools threading and limit memto 75% of available · 1fe7d8b3
  Gervaise Henry authored 4 years ago
  
  1fe7d8b3
- Catch error if fastq file error grep · e7c65fea
  Gervaise Henry authored 4 years ago
  
  e7c65fea
- Fix fastqc error detection · 985cef31
  Gervaise Henry authored 4 years ago
  
  985cef31