Merge requests · biowdl / tasks

Add task for bowtie aligner

!1 · created Mar 14, 2018 by Ruben Vorderman
- CLOSED
- 12
updated Mar 14, 2018
Star

!2 · created Mar 15, 2018 by Ruben Vorderman
- MERGED
- 0
updated Mar 15, 2018
modify definition of defaults in star.wdl

!3 · created Mar 15, 2018 by Ruben Vorderman
- MERGED
- 0
updated Mar 16, 2018
add SplitNCigarReads

!5 · created Mar 19, 2018 by Ruben Vorderman
- MERGED
- 1
updated Mar 20, 2018
Add quantification tools

!4 · created Mar 16, 2018 by Ruben Vorderman
- MERGED
- 4
updated Mar 29, 2018
add merge counts

!6 · created Mar 19, 2018 by Ruben Vorderman
- MERGED
- 3
updated Mar 29, 2018
add intervals option to SplitNCigarReads

!7 · created Mar 21, 2018 by Ruben Vorderman
- MERGED
- 0
updated Mar 29, 2018
Run time settings and additional adjustments

!8 · created Apr 05, 2018 by Ruben Vorderman
- MERGED
- 0
updated Apr 17, 2018
Changes for virus assembly pipeline

!9 · created Apr 18, 2018 by Ruben Vorderman
- CLOSED
- 8
updated May 07, 2018
Extra tasks required for assembly.

!10 · created May 07, 2018 by Ruben Vorderman
- MERGED
- 6
updated May 07, 2018
Adding flash task for combining overlapping reads

!12 · created May 08, 2018 by Ruben Vorderman
- MERGED
- 4
updated May 17, 2018
Changes needed for the iterative assembly pipeline

!11 · created May 07, 2018 by Ruben Vorderman
- MERGED
- 2
updated May 21, 2018
Biowdl 25

!15 · created May 29, 2018 by Ruben Vorderman
- MERGED
- 10
updated May 30, 2018
add limitBAMsortRAM to STAR and make sampleConfig write to file

!14 · created May 14, 2018 by Ruben Vorderman
- MERGED
- 5
updated Jun 01, 2018
Centrifuge related changes

!16 · created Jun 05, 2018 by Ruben Vorderman
- MERGED
- 0
updated Jun 12, 2018
Changes for QC pipeline

!18 · created Jun 12, 2018 by Ruben Vorderman
- MERGED
- 0
updated Jun 12, 2018
Switched executable

!19 · created Jun 12, 2018 by Ruben Vorderman
- MERGED
- 0
updated Jun 12, 2018
Caching related changes

!17 · created Jun 12, 2018 by Ruben Vorderman
- MERGED
- 0
updated Jun 12, 2018
fix conda command SampleConfig

!20 · created Jun 13, 2018 by Ruben Vorderman
- MERGED
- 0
updated Jun 13, 2018
Added seqstat, set minlength for cutadapt to 1.

!21 · created Jun 14, 2018 by Ruben Vorderman develop
- MERGED
- 5
updated Jun 19, 2018