Commits · 3701a796546a0b3772b633b4c152491bc1c52f09 · bioinfo / ngs_tools

25 May, 2018 1 commit
- 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
11 Apr, 2018 2 commits
- new mouse ens92 ensembl build · 4c7b1efa
  Holger Brandl authored Apr 11, 2018
  
  4c7b1efa
- new mouse igenomes build · c10a6f48
  Holger Brandl authored Apr 11, 2018
  
  c10a6f48
09 Apr, 2018 1 commit
- excluded patch level from r-release check · a86e42b2
  Holger Brandl authored Apr 09, 2018
  
  a86e42b2
06 Apr, 2018 2 commits
- removed unused export · 24edb814
  Holger Brandl authored Apr 06, 2018
  
  24edb814
- limma: Added pca plot for normalized data · 4b18f9c2
  Holger Brandl authored Apr 06, 2018
  
  4b18f9c2
05 Apr, 2018 1 commit
- revision set intersection helpers · 6870d0c6
  Holger Brandl authored Apr 05, 2018
  
  6870d0c6
04 Apr, 2018 2 commits
- added score correlation plot to limma workflow · 8f5d78d2
  Holger Brandl authored Apr 04, 2018
  
  8f5d78d2
- added `as_int_matrix` and `expr_matrix_to_df` to diffex commons · 4f2e78ef
  Holger Brandl authored Apr 04, 2018
  
  4f2e78ef
28 Mar, 2018 3 commits
- print contrasts · b64a4f61
  Holger Brandl authored Mar 28, 2018
  
  b64a4f61
- merged with remote · 41281865
  Holger Brandl authored Mar 28, 2018
  
  41281865
- added support for design; fixed q/p cutoff parameters · 703ce35f
  Holger Brandl authored Mar 28, 2018
  
  703ce35f
23 Mar, 2018 3 commits
- changed input to counts matrix and design; changed handeling of input data;... · 13ce56ad
  Lena Hersemann authored Mar 23, 2018
```
changed input to counts matrix and design; changed handeling of input data; added sequencing saturation plot
```
  13ce56ad
- added information on UMI-tools docker container · 5baa8f19
  Lena Hersemann authored Mar 23, 2018
  
  5baa8f19
- added option to directly provide biomart database · bcb9b774
  Lena Hersemann authored Mar 23, 2018
  
  bcb9b774
20 Mar, 2018 1 commit
- added installation of last · 1a996c1c
  Lena Hersemann authored Mar 20, 2018
  
  1a996c1c
13 Mar, 2018 1 commit
- added support for custom designs to limma workflow · 4a0a50b2
  Holger Brandl authored Mar 13, 2018
  
  4a0a50b2
09 Mar, 2018 1 commit
- revised imputation scheme for ms data · 6c28e105
  Holger Brandl authored Mar 09, 2018
  
  6c28e105
08 Mar, 2018 3 commits
- updated limma instructions · ebb14943
  Holger Brandl authored Mar 08, 2018
  
  ebb14943
- moved limma workflow into ngs tools · 873e2471
  Holger Brandl authored Mar 08, 2018
  
  873e2471
- removed unused files · e833e7c9
  Holger Brandl authored Mar 08, 2018
  
  e833e7c9
26 Feb, 2018 1 commit
- change "fetch the data" section to prevent disclosure of login details · 719fe937
  Lena Hersemann authored Feb 26, 2018
  
  719fe937
05 Feb, 2018 2 commits
- added install instructions for flash · 6747f0ad
  Holger Brandl authored Feb 05, 2018
  
  6747f0ad
- added more adapters from Ian · 28132c72
  Holger Brandl authored Feb 05, 2018
  
  28132c72
31 Jan, 2018 5 commits
- cont cutadapt pe report (still incomplete) · fdb214a3
  Holger Brandl authored Jan 31, 2018
  
  fdb214a3
- allow to override custom star params with environment variable · 2418d783
  Holger Brandl authored Jan 31, 2018
  
  2418d783
- added standard illumina adapters as reference for cutadapt · 7c330dc3
  Holger Brandl authored Jan 31, 2018
  
  7c330dc3
- impl cutadapt report for pe data · a7a09f11
  Holger Brandl authored Jan 31, 2018
  
  a7a09f11
- updated igv and added helper · 4ee94457
  Holger Brandl authored Jan 31, 2018
  
  4ee94457