Commits · master · mbb / waw

18 Aug, 2022 8 commits
- remove align_file usage · 5086646a
  khalid authored Aug 18, 2022
  
  5086646a
- remove align_file usage · 1ac925b8
  khalid authored Aug 18, 2022
  
  1ac925b8
- remove align_file usage · 0c47bcbb
  khalid authored Aug 18, 2022
  
  0c47bcbb
- ggtree input debug · fc7f13b6
  khalid authored Aug 18, 2022
  
  fc7f13b6
- ggtree input no longer from parameters · 1330222b
  khalid authored Aug 18, 2022
  
  1330222b
- add ggtree to draw a newick file · 67e97e98
  khalid authored Aug 18, 2022
  
  67e97e98
- change file syntaxe · b402381c
  khalid authored Aug 18, 2022
  
  b402381c
- change file syntaxe · 46cbb658
  khalid authored Aug 18, 2022
  
  46cbb658
17 Aug, 2022 4 commits
- remove comment lines from phylip file · 69a8abfc
  khalid authored Aug 17, 2022
  
  69a8abfc
- change population outputs to produce a phylip with seq for each sample · f1c8f035
  khalid authored Aug 17, 2022
  
  f1c8f035
- change population outputs to produce a phylip with seq for each sample · fb3ff34b
  khalid authored Aug 17, 2022
  
  fb3ff34b
- change population outputs to produce a phylip with seq for each sample · 7e4bf7a4
  khalid authored Aug 17, 2022
  
  7e4bf7a4
16 Aug, 2022 1 commit
- change population outputs · ffc5c452
  khalid authored Aug 16, 2022
  
  ffc5c452
11 Aug, 2022 2 commits
- output a gross summary · 60804bbb
  khalid authored Aug 11, 2022
  
  60804bbb
- output a gross summary · 5212cbc5
  khalid authored Aug 11, 2022
  
  5212cbc5
10 Aug, 2022 5 commits
- add ordered-export to avoid duplicated snp output in vcf · 6309784c
  khalid authored Aug 10, 2022
  
  6309784c
- bcftools module for multiqc · 17a062b0
  khalid authored Aug 10, 2022
  
  17a062b0
- deal with case input is a raw_gstacks_dir · c91abf00
  khalid authored Aug 10, 2022
  
  c91abf00
- deal with case input is a raw_gstacks_dir · 84986630
  khalid authored Aug 10, 2022
  
  84986630
- add a raw_gstacks_dir · 2eab3067
  khalid authored Aug 10, 2022
  
  2eab3067
09 Aug, 2022 1 commit
- set the right output for faststructure · 67ec79e2
  khalid authored Aug 09, 2022
  
  67ec79e2
05 Aug, 2022 1 commit
- fastStructure install and // · d9b3d586
  khalid authored Aug 05, 2022
  
  d9b3d586
26 Jul, 2022 1 commit
- remove installed cython version before installing version 0.27.3 for faststructure · bcd1372d
  khalid authored Jul 26, 2022
  
  bcd1372d
22 Jul, 2022 1 commit
- change cython to version 0.27.3 · 4e590768
  khalid authored Jul 22, 2022
  
  4e590768
11 Jul, 2022 1 commit
- Add a test to avoid wrong tools in params.yaml file · 681f771d
  khalid authored Jul 11, 2022
  
  681f771d
01 Jul, 2022 1 commit
- upgrade to bwa-mem2.2.2.1 · 10c184d4
  khalid authored Jul 01, 2022
  
  10c184d4
28 Jun, 2022 1 commit
- Deal with variable position of sample ID in biom files · 7bec58c0
  khalid authored Jun 28, 2022
  
  7bec58c0
27 Jun, 2022 1 commit
- Deal with variable position of sample ID in biom files · fb76ebde
  khalid authored Jun 27, 2022
  
  fb76ebde
22 Jun, 2022 2 commits
- upgrade bwa_mem2 version · f9fd9930
  khalid authored Jun 22, 2022
  
  f9fd9930
- simpler way to get reference index name · 3376cd61
  khalid authored Jun 22, 2022
  
  3376cd61
21 Jun, 2022 2 commits
- vcf output from populations can be insorted so bcftools sort before tabix · 8f66c159
  khalid authored Jun 21, 2022
  
  8f66c159
- rm_pcr_duplicates is disabled by default · a3add658
  khalid authored Jun 21, 2022
  
  a3add658
20 Jun, 2022 1 commit
- Add missing bracket to param name · 90cbcc7b
  khalid authored Jun 20, 2022
  
  90cbcc7b
17 Jun, 2022 3 commits
- Update stacks denovo pipeline · 427b1513
  khalid authored Jun 17, 2022
  
  427b1513
- refactor shell command · 367f8499
  khalid authored Jun 17, 2022
  
  367f8499
- no more use of bcftools sort on vcf produced by populations · 8e81b4e6
  khalid authored Jun 17, 2022
  
  8e81b4e6
16 Jun, 2022 4 commits
- Up todate Interop WF · 234d1dd1
  khalid authored Jun 16, 2022
  
  234d1dd1
- Deal with cases where Index2 is absent · c483d8fc
  khalid authored Jun 16, 2022
  
  c483d8fc
- Add an up todate version · 83cefbad
  khalid authored Jun 16, 2022
  
  83cefbad
- change labels · 4f80d775
  khalid authored Jun 16, 2022
  
  4f80d775