Commits · f26f0d5053c7a7133867b18e73b524572e32a870 · bioinfo / ngs_tools

15 Nov, 2018 2 commits
- added hints about automatic testing · f26f0d50
  brandl authored Nov 15, 2018
  
  f26f0d50
- removed gh with gitlab paths in source_url calls · 94af8065
  brandl authored Nov 15, 2018
  
  94af8065
07 Nov, 2018 1 commit
- fixed execution in case of lin-dep design · bf8e86fe
  brandl authored Nov 07, 2018
  
  bf8e86fe
02 Nov, 2018 2 commits
- Merge remote-tracking branch 'origin/master' · 9fb37e32
  Lena Hersemann authored Nov 02, 2018
  
  9fb37e32
- changed the independent filtering method in the DESeq2 results() function from... · 0c52bb1f
  Lena Hersemann authored Nov 02, 2018
```
changed the independent filtering method in the DESeq2 results() function from the default to independent hypothesis weighting (IHW)
```
  0c52bb1f
30 Oct, 2018 1 commit
- changed library to load_pack in kallisto aggregator · 8f48376f
  brandl authored Oct 30, 2018
  
  8f48376f
19 Oct, 2018 1 commit
- fixed setting of `results_prefix` · cb521c1f
  brandl authored Oct 19, 2018
  
  cb521c1f
28 Sep, 2018 1 commit
- added LocalFold · 71039e60
  Lena Hersemann authored Sep 28, 2018
  
  71039e60
20 Sep, 2018 1 commit
- added export of session information · f8abfd11
  Lena Hersemann authored Sep 20, 2018
  
  f8abfd11
19 Sep, 2018 1 commit
- removed empty default for --out (files prefix) · 86e140da
  Lena Hersemann authored Sep 19, 2018
  
  86e140da
18 Sep, 2018 2 commits
- devtools functions to reload dplyr package; command to stop script if no enriched terms were found · 351a906d
  Lena Hersemann authored Sep 18, 2018
  
  351a906d
- removed default settings for --project_prefix and --biomart_database · 83be95a6
  Lena Hersemann authored Sep 18, 2018
  
  83be95a6
13 Sep, 2018 2 commits
- Merge remote-tracking branch 'origin/master' · 32cc19ec
  Lena Hersemann authored Sep 13, 2018
  
  32cc19ec
- added installation of gffcompare and RNAfold on bioinfo · 6f4c9180
  Lena Hersemann authored Sep 13, 2018
  
  6f4c9180
11 Sep, 2018 1 commit
- fixed argument · 48e5f59c
  Holger Brandl authored Sep 11, 2018
  
  48e5f59c
04 Sep, 2018 1 commit
- fixed peak_report.R for mouse · a81401bd
  Holger Brandl authored Sep 04, 2018
  
  a81401bd
30 Aug, 2018 2 commits
- require contrast attribute to come first in design · 76c5dd98
  Holger Brandl authored Aug 30, 2018
  
  76c5dd98
- added pca matrix and scree plot · 5b5cddd2
  Holger Brandl authored Aug 30, 2018
  
  5b5cddd2
24 Aug, 2018 1 commit
- used quoted heredoc to prevent variable substitution · 52ae08a9
  Holger Brandl authored Aug 24, 2018
  
  52ae08a9
16 Aug, 2018 4 commits
- increased memory for bigwig creation · fc7e9865
  Holger Brandl authored Aug 16, 2018
  
  fc7e9865
- export append2path for later usage · 25ba726e
  Holger Brandl authored Aug 16, 2018
  
  25ba726e
- fixed cs_lib_size · 88894538
  Holger Brandl authored Aug 16, 2018
  
  88894538
- replaced spin with rendr · 95672d3d
  Holger Brandl authored Aug 16, 2018
  
  95672d3d
11 Jul, 2018 1 commit
- added trim · 160f04a1
  Holger Brandl authored Jul 11, 2018
  
  160f04a1
06 Jul, 2018 1 commit
- fixed distance calculation · 3dd8e3b7
  Holger Brandl authored Jul 06, 2018
  
  3dd8e3b7
26 Jun, 2018 1 commit
- added missing dependency in batch analysis · da66b2ac
  Holger Brandl authored Jun 26, 2018
  
  da66b2ac
20 Jun, 2018 1 commit
- added NA support for gene info; upscaled MA plots to more contrasts · 23d21d5c
  Holger Brandl authored Jun 20, 2018
  
  23d21d5c
25 May, 2018 2 commits
- fixed meanNormCounts for further usage · 3fdacd26
  Lena Hersemann authored May 25, 2018
  
  3fdacd26
- fixed norm count mean per condition · 3701a796
  Lena Hersemann authored May 25, 2018
  
  3701a796
18 May, 2018 2 commits
- Merge remote-tracking branch 'origin/master' · e49c69ea
  Lena Hersemann authored May 18, 2018
  
  e49c69ea
- fixed bug concerning biomart database selection · 9ee74d5b
  Lena Hersemann authored May 18, 2018
  
  9ee74d5b
15 May, 2018 1 commit
- fixed custom mouse igenome build · 4ad913ba
  Holger Brandl authored May 15, 2018
  
  4ad913ba
03 May, 2018 2 commits
- fixed arg check in dge_bigwig · f74a8f8c
  Holger Brandl authored May 03, 2018
  
  f74a8f8c
- modernized dge_merge_treps · 3417e5b5
  Holger Brandl authored May 03, 2018
  
  3417e5b5
02 May, 2018 1 commit
- simplified redundant export in kallisto data aggregation · 0dea3358
  Holger Brandl authored May 02, 2018
  
  0dea3358
26 Apr, 2018 1 commit
- changed left to inner join when adding gene length for fpkm/tpm normalization · 2af95767
  Holger Brandl authored Apr 26, 2018
  
  2af95767
18 Apr, 2018 2 commits
- fixed output prefixing in limma workflow · e698d45e
  Holger Brandl authored Apr 18, 2018
  
  e698d45e
- added shebang line to limma workflow · f62cfeac
  Holger Brandl authored Apr 18, 2018
  
  f62cfeac
12 Apr, 2018 2 commits
- fixed mouse igenome build · c052f458
  Holger Brandl authored Apr 12, 2018
  
  c052f458
- reduced bootstrapping for kallisto · a320236a
  Holger Brandl authored Apr 12, 2018
  
  a320236a