Commits · f4aa55d88aee404af244fd2032511d55e176d04b · bioinfo / ngs_tools

27 Oct, 2017 2 commits
- added support for chimpanzee · f4aa55d8
  Holger Brandl authored Oct 27, 2017
  
  f4aa55d8
- adjusted geom_text position of volcano plots · fd8d9310
  Lena Hersemann authored Oct 27, 2017
  
  fd8d9310
26 Oct, 2017 3 commits
- added DESeq2 option betaprior with default = TRUE; corrected volcano plot... · 7ea79694
  Lena Hersemann authored Oct 26, 2017
```
added DESeq2 option betaprior with default = TRUE; corrected volcano plot labelling; removed default of geneInfo option
```
  7ea79694
- use tag for diffex_commons.R sourcing · f852f099
  Holger Brandl authored Oct 26, 2017
  
  f852f099
- removed jittering · 8928d706
  Holger Brandl authored Oct 26, 2017
  
  8928d706
16 Oct, 2017 1 commit
- added option to give own geneInfo file · e3b0de32
  Lena Hersemann authored Oct 16, 2017
  
  e3b0de32
05 Sep, 2017 1 commit
- more consistent naming of columns · a9670069
  Holger Brandl authored Sep 05, 2017
  
  a9670069
04 Sep, 2017 1 commit
- expose used ensembl backend db as parameter; more strict input data validation. · f0c589a4
  Holger Brandl authored Sep 04, 2017
  
  f0c589a4
26 Jul, 2017 1 commit
- updated report of exported data · 5eae0706
  Lena Hersemann authored Jul 26, 2017
  
  5eae0706
24 Jul, 2017 1 commit
- fixed count filter · 33b07718
  Lena Hersemann authored Jul 24, 2017
  
  33b07718
20 Jul, 2017 1 commit
- added outliers analysis · c62c820b
  Lena Hersemann authored Jul 20, 2017
  
  c62c820b
19 Jul, 2017 1 commit
- updated PCA with and without batch effect and updated to datautils/v1.42/R/ggplot_commons.R · 6b88e214
  Lena Hersemann authored Jul 19, 2017
  
  6b88e214
22 Jun, 2017 1 commit
- changed pca to color in all effecdts · 7618864e
  Holger Brandl authored Jun 22, 2017
  
  7618864e
20 Jun, 2017 2 commits
- cosmetics; updated kotlin dependencies · 2a0b5d4a
  Holger Brandl authored Jun 20, 2017
  
  2a0b5d4a
- restored correct grouping in fpkm export · ee1cdecc
  Holger Brandl authored Jun 20, 2017
  
  ee1cdecc
19 Jun, 2017 3 commits
- added top20 matrix visualization · 3ef2a845
  Holger Brandl authored Jun 19, 2017
  
  3ef2a845
- improved tpm export. disabled ihw. more args checking · 19d0008d
  Holger Brandl authored Jun 19, 2017
  
  19d0008d
- fixes #14 · 04382498
  herseman authored Jun 19, 2017
```
changes made to create a tpm output as wide table including gene_name and gene_description
'sample' replaced by 'condition'
```
  04382498
01 Jun, 2017 1 commit
- added more comments · d40ff20a
  Holger Brandl authored Jun 01, 2017
  
  d40ff20a
29 May, 2017 1 commit
- fixed stranding in analysis · f42d16c4
  Holger Brandl authored May 29, 2017
  
  f42d16c4
24 May, 2017 1 commit
- also export directed hits table for enrichment analysis · f646e90e
  Holger Brandl authored May 24, 2017
  
  f646e90e
19 May, 2017 3 commits
- cosmetics · f3d79628
  Holger Brandl authored May 19, 2017
  
  f3d79628
- inc used ensembl version to mar2017 · 7973fe51
  Holger Brandl authored May 19, 2017
  
  7973fe51
- enabled ihw; improved volcano plots · f71633c3
  Holger Brandl authored May 19, 2017
  
  f71633c3
18 May, 2017 1 commit
- added deprecation warning when being used without design file · 4ea1f4dd
  Holger Brandl authored May 18, 2017
  
  4ea1f4dd
28 Apr, 2017 1 commit
- updated common dependencies · 587dfe0b
  Holger Brandl authored Apr 28, 2017
  
  587dfe0b
10 Apr, 2017 1 commit
- used archive site for biomart · 33202806
  Holger Brandl authored Apr 10, 2017
  
  33202806
13 Mar, 2017 1 commit
- dge workflow improvements · 7700e36a
  Holger Brandl authored Mar 13, 2017
  
  7700e36a
22 Dec, 2016 1 commit
- gene loss count debugging for liver proteomics · 090c3745
  Holger Brandl authored Dec 22, 2016
  
  090c3745
18 Nov, 2016 1 commit
- inc commons version · ab4bad78
  Holger Brandl authored Nov 18, 2016
  
  ab4bad78
20 Oct, 2016 1 commit
- bug fixes · ddfd4607
  Holger Brandl authored Oct 20, 2016
  
  ddfd4607
18 Oct, 2016 1 commit
- cosmetics · dcbee225
  Holger Brandl authored Oct 18, 2016
  
  dcbee225
11 Oct, 2016 1 commit
- added issue #11 comment; refac of diffex workflow to current R · 72893bc8
  Holger Brandl authored Oct 11, 2016
  
  72893bc8
07 Jul, 2016 1 commit
- cont gsea wrapper · 7abd76a4
  Holger Brandl authored Jul 07, 2016
  
  7abd76a4
15 Jun, 2016 1 commit
- cosmetics · 05130a0f
  Holger Brandl authored Jun 15, 2016
  
  05130a0f
17 May, 2016 1 commit
- cosmetics · 92a54c21
  Holger Brandl authored May 17, 2016
  
  92a54c21
13 May, 2016 1 commit
- deseq workflow cosmetics · aea6b362
  Holger Brandl authored May 13, 2016
  
  aea6b362
12 May, 2016 3 commits
- cont mf-deseq · 5b9dc042
  Holger Brandl authored May 13, 2016
  
  5b9dc042
- clean up and tool deprecation · 10fdfc65
  Holger Brandl authored May 12, 2016
  
  10fdfc65
- improved deseq reporting · a4056b0f
  Holger Brandl authored May 12, 2016
  
  a4056b0f