Commits · c92fa7ce5823ef25eb53266f131b83d61c02a8b4 · David Hoksza / bh19-rare-diseases

21 Nov, 2019 24 commits
- safety commit · c92fa7ce
  Enza Colonna authored Nov 21, 2019
  
  c92fa7ce
- endline fix · bfdedd0d
  Marek Ostaszewski authored Nov 21, 2019
  
  bfdedd0d
- Config correction · 65b40442
  Marek Ostaszewski authored Nov 21, 2019
  
  65b40442
- Headers removed · 409348e1
  Marek Ostaszewski authored Nov 21, 2019
  
  409348e1
- another not necessary dependency removed · 89da0893
  Piotr Gawron authored Nov 21, 2019
  
  89da0893
- unused dependency removed · 3e55d8d4
  Piotr Gawron authored Nov 21, 2019
  
  3e55d8d4
- text mining file is optional · 237aa691
  Piotr Gawron authored Nov 21, 2019
  
  237aa691
- Merge branch 'master' of https://git-r3lab.uni.lu/david.hoksza/bh19-rare-diseases · b48ca968
  Piotr Gawron authored Nov 21, 2019
  
  b48ca968
- command line interface added + README · 7c9fb0d1
  Piotr Gawron authored Nov 21, 2019
  
  7c9fb0d1
- Merge branch 'master' of https://git-r3lab.uni.lu/david.hoksza/bh19-rare-diseases · 233c1037
  David Hoksza authored Nov 21, 2019
  
  233c1037
- clinvar merging accepting arbitrary number of inputs · 1150cb40
  David Hoksza authored Nov 21, 2019
  
  1150cb40
- safety before lunch ;) · 4ec5bcc9
  Enza Colonna authored Nov 21, 2019
  
  4ec5bcc9
- map generator added · 5f69799f
  Piotr Gawron authored Nov 21, 2019
  
  5f69799f
- updated readme · 7a177575
  David Hoksza authored Nov 21, 2019
  
  7a177575
- enrichment integrated in the pipeline. updated readme · 7631ecf7
  David Hoksza authored Nov 21, 2019
  
  7631ecf7
- repos · f59b34b0
  David Hoksza authored Nov 21, 2019
  
  f59b34b0
- simpler write table · a3a2c9f8
  Marek Ostaszewski authored Nov 21, 2019
  
  a3a2c9f8
- Merge branch 'master' of ssh://git-r3lab-server.uni.lu:8022/david.hoksza/bh19-rare-diseases · 8707e571
  Marek Ostaszewski authored Nov 21, 2019
  
  8707e571
- No tidyverse · 919f42a0
  Marek Ostaszewski authored Nov 21, 2019
  
  919f42a0
- in association/vepmining: vep.py WORKSgit add . ! fetches allele frequencies... · b11f9e9e
  Enza Colonna authored Nov 21, 2019
```
in association/vepmining: vep.py WORKSgit add . !  fetches allele frequencies for list of variants one at time;  vepAllInOne NEEDS TO BE FIXED :(  fetches more than one varinat at time; need polishing but committing, just in case..
```
  b11f9e9e
- update before commit · 24e6edf2
  Enza Colonna authored Nov 21, 2019
```
Merge branch 'master' of https://git-r3lab.uni.lu/david.hoksza/bh19-rare-diseases
```
  24e6edf2
- Updated script and documentation · 218fc6c1
  Marek Ostaszewski authored Nov 21, 2019
  
  218fc6c1
- Enrichment analysis code · 69341fd3
  Marek Ostaszewski authored Nov 21, 2019
```
Merge branch 'master' of ssh://git-r3lab-server.uni.lu:8022/david.hoksza/bh19-rare-diseases
```
  69341fd3
- enrichment code · c4d3f5ab
  Marek Ostaszewski authored Nov 21, 2019
  
  c4d3f5ab
20 Nov, 2019 8 commits
- opnetargets variants in progress · fbfc12bf
  David Hoksza authored Nov 20, 2019
  
  fbfc12bf
- minor change in genes overlay generator · 382c637c
  David Hoksza authored Nov 20, 2019
  
  382c637c
- added generation of gene list for minerva · d74d4f67
  David Hoksza authored Nov 20, 2019
  
  d74d4f67
- in vepmining: vep.py WORKSgit add . fetches allele frequencies for list of... · 758f037d
  Enza Colonna authored Nov 20, 2019
```
in vepmining: vep.py WORKSgit add .  fetches allele frequencies for list of variants one at time;  vepAllInOne NEEDS TO BE FIXED :(  fetches more than one varinat at time
```
  758f037d
- assemble variants · 905322d2
  David Hoksza authored Nov 20, 2019
  
  905322d2
- readme · b00066f2
  David Hoksza authored Nov 20, 2019
  
  b00066f2
- input multiple omim ids; initial assamble script · b265fa98
  David Hoksza authored Nov 20, 2019
  
  b265fa98
- alpha version of variants for minerva · c33f63aa
  David Hoksza authored Nov 20, 2019
  
  c33f63aa
19 Nov, 2019 6 commits
- querying of variants · 4aabfd96
  David Hoksza authored Nov 19, 2019
  
  4aabfd96
- include variants field even when there are no variants · 4b6e5a29
  David Hoksza authored Nov 19, 2019
  
  4b6e5a29
- proper handling of multiple genes per variant · 5d83b1b7
  David Hoksza authored Nov 19, 2019
  
  5d83b1b7
- fix disgenet · 0dadd4d0
  David Hoksza authored Nov 19, 2019
  
  0dadd4d0
- mapping returned as dictionary from both opentargets and disgenet · c0474a32
  David Hoksza authored Nov 19, 2019
  
  c0474a32
- readme · 8a618a8b
  David Hoksza authored Nov 19, 2019
  
  8a618a8b
18 Nov, 2019 2 commits
- readme · 9162b58f
  David Hoksza authored Nov 18, 2019
  
  9162b58f
- repository structure · c2e4472c
  David Hoksza authored Nov 18, 2019
  
  c2e4472c