Commits · 5a2269644e0c666ca714d74c29ef468a0e423cbe · UNLOCK / cwl

15 Apr, 2022 13 commits
- change kraken.cwl version and busco fix · 5a226964
  Nijsse, Bart authored Apr 15, 2022
  
  5a226964
- busco folder fix · b6219b59
  Nijsse, Bart authored Apr 15, 2022
  
  b6219b59
- add kraken2+krona and busco fix · e8158958
  Nijsse, Bart authored Apr 15, 2022
  
  e8158958
- add krona, changed kraken2.cwl version · ab1ac24b
  Nijsse, Bart authored Apr 15, 2022
  
  ab1ac24b
- moved to cwl/kraken2 · 61c8e06a
  Nijsse, Bart authored Apr 15, 2022
  
  61c8e06a
- fastqc zipfiles output, step naming · 66ecd2da
  Nijsse, Bart authored Apr 15, 2022
  
  66ecd2da
- added illumina kraken2 post filter, step naming · cd2c5ab1
  Nijsse, Bart authored Apr 15, 2022
  
  cd2c5ab1
- added busco and changed step naming · ee45b4bb
  Nijsse, Bart authored Apr 15, 2022
  
  ee45b4bb
- changes/simplified names of the steps a bit · 2857aadf
  Nijsse, Bart authored Apr 15, 2022
  
  2857aadf
- fastqc zipfiles and naming · b9f0c7b3
  Nijsse, Bart authored Apr 15, 2022
  
  b9f0c7b3
- zip files as output for multiqc · fa419809
  Nijsse, Bart authored Apr 15, 2022
  
  fa419809
- always complete succes even when busco fails · 3fafab27
  Nijsse, Bart authored Apr 15, 2022
  
  3fafab27
- obsolete, reduced and moved to the binning workflow · 58274bc7
  Nijsse, Bart authored Apr 15, 2022
  
  58274bc7
13 Apr, 2022 6 commits
- fastq input strings · 47cf35b7
  Nijsse, Bart authored Apr 13, 2022
  
  47cf35b7
- fastq input strings · 9bce68e3
  Nijsse, Bart authored Apr 13, 2022
  
  9bce68e3
- naming and fastq input strings · d7688b07
  Nijsse, Bart authored Apr 13, 2022
  
  d7688b07
- added stdErr log output · 1ef34700
  Nijsse, Bart authored Apr 13, 2022
  
  1ef34700
- output naming · 2597bd89
  Nijsse, Bart authored Apr 13, 2022
  
  2597bd89
- string file paths as input · a85e9a91
  Nijsse, Bart authored Apr 13, 2022
  
  a85e9a91
12 Apr, 2022 2 commits
- Revert "Change input to strings + more clear naming of steps and output." · 0c01cb71
  Nijsse, Bart authored Apr 12, 2022
```
This reverts commit 884d2b12.
```
  0c01cb71
- Change input to strings + more clear naming of steps and output. · 4c6f0109
  Nijsse, Bart authored Apr 12, 2022
  
  4c6f0109
11 Apr, 2022 1 commit
- file rename, mapped/unmapped option · 6dd95ddf
  Nijsse, Bart authored Apr 11, 2022
  
  6dd95ddf
08 Apr, 2022 18 commits
- obsolete · d9be0fe7
  Nijsse, Bart authored Apr 08, 2022
  
  d9be0fe7
- obsolete · 3e39274a
  Nijsse, Bart authored Apr 08, 2022
  
  3e39274a
- param rename · 7033d4ea
  Nijsse, Bart authored Apr 08, 2022
  
  7033d4ea
- removed bbmap rpkm output · 7f8b1aac
  Nijsse, Bart authored Apr 08, 2022
  
  7f8b1aac
- output mapped or unmapped reads · e2291571
  Nijsse, Bart authored Apr 08, 2022
  
  e2291571
- deduplicate reads and use mapped or unmapped reads · fbb34ef4
  Nijsse, Bart authored Apr 08, 2022
  
  fbb34ef4
- param rename · 42a90fe8
  Nijsse, Bart authored Apr 08, 2022
  
  42a90fe8
- deduplicate reads and use mapped or unmapped reads · f39a0311
  Nijsse, Bart authored Apr 08, 2022
  
  f39a0311
- deduplicate reads and use mapped or unmapped reads · 33c90040
  Nijsse, Bart authored Apr 08, 2022
  
  33c90040
- Can now be used to get both mapped and unmapped reads · 8eefe90f
  Nijsse, Bart authored Apr 08, 2022
  
  8eefe90f
- rename · a1cfa564
  Nijsse, Bart authored Apr 08, 2022
  
  a1cfa564
- filter mapped or unmapped reads option · 320acc91
  Nijsse, Bart authored Apr 08, 2022
  
  320acc91
- text · 50db3d8c
  Nijsse, Bart authored Apr 08, 2022
  
  50db3d8c
- readable · d1e3d7c4
  Nijsse, Bart authored Apr 08, 2022
  
  d1e3d7c4
- rm · c6f15579
  Nijsse, Bart authored Apr 08, 2022
  
  c6f15579
- changed output to only (un)mapped pairs · 49a2d668
  Nijsse, Bart authored Apr 08, 2022
  
  49a2d668
- name change to it's purpose · e935a77d
  Nijsse, Bart authored Apr 08, 2022
  
  e935a77d
- changed parameters and option between mapped or unmapped reads · 6fa73689
  Nijsse, Bart authored Apr 08, 2022
  
  6fa73689