tasks merge requestshttps://git.lumc.nl/biowdl/tasks/-/merge_requests2018-12-05T09:07:04+01:00https://git.lumc.nl/biowdl/tasks/-/merge_requests/80Add argument for filtering on MAPQ (alignment quality) for View task2018-12-05T09:07:04+01:00Ruben VordermanAdd argument for filtering on MAPQ (alignment quality) for View task*Created by: johnmous*
*Created by: johnmous*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/8Run time settings and additional adjustments2018-04-17T17:47:20+02:00Ruben VordermanRun time settings and additional adjustments*Created by: DavyCats*
- add runtime settings
- don't make a new BAM file if only one is given (samtools merge), instead link
- rename gff to gtf*Created by: DavyCats*
- add runtime settings
- don't make a new BAM file if only one is given (samtools merge), instead link
- rename gff to gtfhttps://git.lumc.nl/biowdl/tasks/-/merge_requests/79Update stringtie.wdl2018-12-06T10:05:59+01:00Ruben VordermanUpdate stringtie.wdl*Created by: DavyCats*
*Created by: DavyCats*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/78Macs2 biocontainer2018-12-03T15:35:36+01:00Ruben VordermanMacs2 biocontainer*Created by: johnmous*
*Created by: johnmous*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/76update docs to V0.12018-11-26T14:54:35+01:00Ruben Vordermanupdate docs to V0.1*Created by: DavyCats*
*Created by: DavyCats*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/7add intervals option to SplitNCigarReads2018-03-29T19:44:00+02:00Ruben Vordermanadd intervals option to SplitNCigarReads*Created by: DavyCats*
*Created by: DavyCats*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/69increase memory on bamstats2018-10-25T09:31:00+02:00Ruben Vordermanincrease memory on bamstatshttps://git.lumc.nl/biowdl/tasks/-/merge_requests/62Add bamstats2018-09-12T12:29:13+02:00Ruben VordermanAdd bamstatshttps://git.lumc.nl/biowdl/tasks/-/merge_requests/6add merge counts2018-03-29T19:42:26+02:00Ruben Vordermanadd merge counts*Created by: DavyCats*
I'm not sure if the R script is in the right place here.*Created by: DavyCats*
I'm not sure if the R script is in the right place here.https://git.lumc.nl/biowdl/tasks/-/merge_requests/56Switch bwa index to struct2018-08-29T13:12:11+02:00Ruben VordermanSwitch bwa index to struct*Created by: ffinfo*
*Created by: ffinfo*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/54Added alt post script2018-08-28T14:53:09+02:00Ruben VordermanAdded alt post script*Created by: ffinfo*
*Created by: ffinfo*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/51Fixing outputs2018-08-21T12:29:27+02:00Ruben VordermanFixing outputs*Created by: ffinfo*
*Created by: ffinfo*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/50Added sctruct for index files2018-08-21T10:00:20+02:00Ruben VordermanAdded sctruct for index files*Created by: ffinfo*
*Created by: ffinfo*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/5add SplitNCigarReads2018-03-20T16:04:34+01:00Ruben Vordermanadd SplitNCigarReads*Created by: DavyCats*
*Created by: DavyCats*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/49add output to VcfStats2018-08-20T16:17:26+02:00Ruben Vordermanadd output to VcfStats*Created by: DavyCats*
*Created by: DavyCats*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/48Added Cromwell array tool2018-08-20T15:44:06+02:00Ruben VordermanAdded Cromwell array tool*Created by: ffinfo*
*Created by: ffinfo*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/42typo2018-07-27T13:21:22+02:00Ruben Vordermantypo*Created by: DavyCats*
*Created by: DavyCats*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/41fix type of R2_md5 (String to String?)2018-07-27T11:33:32+02:00Ruben Vordermanfix type of R2_md5 (String to String?)*Created by: DavyCats*
*Created by: DavyCats*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/4Add quantification tools2018-03-29T19:37:55+02:00Ruben VordermanAdd quantification tools*Created by: DavyCats*
*Created by: DavyCats*
https://git.lumc.nl/biowdl/tasks/-/merge_requests/37Add samplesheet structs2018-08-22T13:34:35+02:00Ruben VordermanAdd samplesheet structs