Commits · f3440aad63da4acc2fb02a596771760239b96cea · David Hoksza / bh19-rare-diseases · GitLab

04 Dec, 2019 3 commits
- vep included in the pipeline · f3440aad
  David Hoksza authored Dec 04, 2019
  
  f3440aad
- Merge branch 'master' into vep · 2bdfba95
  David Hoksza authored Dec 04, 2019
  
  2bdfba95
- documentation · a7adcd24
  David Hoksza authored Dec 04, 2019
  
  a7adcd24
03 Dec, 2019 5 commits
- unitprot annotations in rdf tag · 17b4348a
  David Hoksza authored Dec 03, 2019
  
  17b4348a
- working version of implanting annotations · 9778d52a
  David Hoksza authored Dec 03, 2019
  
  9778d52a
- correct handling of namespaces in xml · a8004749
  David Hoksza authored Dec 03, 2019
  
  a8004749
- Merge branch 'master' of https://git-r3lab.uni.lu/david.hoksza/bh19-rare-diseases · b24b357a
  David Hoksza authored Dec 03, 2019
  
  b24b357a
- enable passing parameters file; fixing minerva variants · 6b25414c
  David Hoksza authored Dec 03, 2019
  
  6b25414c
02 Dec, 2019 18 commits
- updated code for text mining/omnipath network · 318ee94f
  Marek Ostaszewski authored Dec 02, 2019
  
  318ee94f
- Merge branch 'master' of https://git-r3lab.uni.lu/david.hoksza/bh19-rare-diseases · d92ab358
  David Hoksza authored Dec 02, 2019
  
  d92ab358
- added config for enrichment · 24afafba
  David Hoksza authored Dec 02, 2019
  
  24afafba
- updated code for text mining/omnipath network · 185bf1ab
  Marek Ostaszewski authored Dec 02, 2019
  
  185bf1ab
- extended list · 78749ab4
  David Hoksza authored Dec 02, 2019
  
  78749ab4
- updated code for text mining/omnipath network · ab1381e0
  Marek Ostaszewski authored Dec 02, 2019
  
  ab1381e0
- updated code for text mining/omnipath network · ff69d574
  Marek Ostaszewski authored Dec 02, 2019
  
  ff69d574
- trimming of long strims added to the pipeline · 27022035
  David Hoksza authored Dec 02, 2019
  
  27022035
- ability to turn off given resources in the pipeline · 5264ad15
  David Hoksza authored Dec 02, 2019
  
  5264ad15
- added timestamps to logging · 82f3d173
  David Hoksza authored Dec 02, 2019
  
  82f3d173
- stop pipeline after unsuccesfull command · 6edb2f58
  David Hoksza authored Dec 02, 2019
  
  6edb2f58
- fixing json decoder issues in progress · 9fa8bf5e
  David Hoksza authored Dec 02, 2019
  
  9fa8bf5e
- update associations readme · ba7ed61d
  David Hoksza authored Dec 02, 2019
  
  ba7ed61d
- ability to pass parameters to enrichment analysis from the parameters script · 240ebaae
  David Hoksza authored Dec 02, 2019
  
  240ebaae
- added parameters script file · d41983b9
  David Hoksza authored Dec 02, 2019
  
  d41983b9
- configuration cap on retrieved maps and pathways · 3ee7e4c1
  Marek Ostaszewski authored Dec 02, 2019
  
  3ee7e4c1
- qurying opentargets for variatns; fix issue with possibly missing gene name for a variant in dbsnp · a9500e72
  David Hoksza authored Dec 02, 2019
  
  a9500e72
- association README updated · 65c91a03
  David Hoksza authored Dec 02, 2019
  
  65c91a03
28 Nov, 2019 1 commit
- small description added · 7fe40d43
  Piotr Gawron authored Nov 28, 2019
  
  7fe40d43
22 Nov, 2019 5 commits
- extension of genes integrated · 1e1d7166
  David Hoksza authored Nov 22, 2019
  
  1e1d7166
- assembling into directory with disease id · e8dc2ac4
  David Hoksza authored Nov 22, 2019
  
  e8dc2ac4
- fix wrong number of reported removed snps · 8b895c49
  David Hoksza authored Nov 22, 2019
  
  8b895c49
- gene extension included and prepared for pipeline · 96764ee7
  David Hoksza authored Nov 22, 2019
  
  96764ee7
- myvariants multiple genes fix; opentargets association score in file name fix · 580ad3e7
  David Hoksza authored Nov 22, 2019
  
  580ad3e7
21 Nov, 2019 8 commits
- testing of differences in datasets goes both ways · 9c0850dc
  David Hoksza authored Nov 21, 2019
  
  9c0850dc
- newline in name of minerva variant overlay · 6d956134
  David Hoksza authored Nov 21, 2019
  
  6d956134
- assemble update · 6940442d
  David Hoksza authored Nov 21, 2019
  
  6940442d
- extending network script added · 40671fc5
  David Hoksza authored Nov 21, 2019
  
  40671fc5
- Merge branch 'master' of https://git-r3lab.uni.lu/david.hoksza/bh19-rare-diseases · a656e288
  David Hoksza authored Nov 21, 2019
  
  a656e288
- python dependencies · 3fed1bfd
  David Hoksza authored Nov 21, 2019
  
  3fed1bfd
- python dependencies · 19c2f8b9
  David Hoksza authored Nov 21, 2019
  
  19c2f8b9
- possible solution to the sed-newline issue on mac · a185ce22
  David Hoksza authored Nov 21, 2019
  
  a185ce22