Commits · master · Christian Arnold / ATACSeq_Snakemake

Jan 17, 2024
- Changed queue name due to embl SLURM changes · 59e915a8
  Christian Arnold authored 1 year ago
  
  59e915a8
Dec 04, 2023
- Adaptations for edge cases and analyses with different genomes, removed the... · 02d35e09
  Christian Arnold authored 1 year ago
  
  Adaptations for edge cases and analyses with different genomes, removed the node constraint in the cluster profile
  02d35e09
Oct 06, 2023
- updated readme · 395a1f50
  Christian Arnold authored 1 year ago
  
  395a1f50
- updated README · 6bb69263
  Christian Arnold authored 1 year ago
  
  6bb69263
- Cleanup · 4e1f8f39
  Christian Arnold authored 1 year ago
  
  4e1f8f39
- Deleted one file · 6f6e5f18
  Christian Arnold authored 1 year ago
  
  6f6e5f18
- Deleted one file · faaae967
  Christian Arnold authored 1 year ago
  
  faaae967
- config file clarifications · 010a0b98
  Christian Arnold authored 1 year ago
  
  010a0b98
- Cleaning files · 5df6a99b
  Christian Arnold authored 1 year ago
  
  5df6a99b
- Doc updates · b5ca6279
  Christian Arnold authored 1 year ago
  
  b5ca6279
- README updates · 735ec3de
  Christian Arnold authored 1 year ago
  
  735ec3de
- modified README · 10a90b5c
  Christian Arnold authored 1 year ago
  
  10a90b5c
Jun 28, 2023
- Fixing macs2 related error when no input control is specified · 071b5a70
  Christian Arnold authored 1 year ago
  
  071b5a70
Apr 25, 2023
- Removed /g/scb2 instances and replaced with /g/zaugg · fb07bcae
  Christian Arnold authored 1 year ago
  
  fb07bcae
Mar 24, 2023
- updated contaienr URL and other small changes · 46466c32
  Christian Arnold authored 1 year ago
  
  46466c32
Mar 23, 2023
- misc · c5f7bfda
  Christian Arnold authored 1 year ago
  
  c5f7bfda
Mar 21, 2023
- change multiqc config file back to an absolute path · a1d50bd8
  Christian Arnold authored 1 year ago
  
  a1d50bd8
- misc · e3a40ec4
  Christian Arnold authored 1 year ago
  
  e3a40ec4
- make PCA script more failure proof · 0014dcc7
  Christian Arnold authored 1 year ago
  
  0014dcc7
- Create dirs if they dont exist yet · d9d165fd
  Christian Arnold authored 1 year ago
  
  d9d165fd
- Small bugfixes related to ChIP-Seq input control and small number of peaks that crash ChIPSeeker · bbf39324
  Christian Arnold authored 1 year ago
  
  bbf39324
Oct 11, 2022
- Added /g/zaugg to params.sh templates · 65f7fb56
  Christian Arnold authored 2 years ago
  
  65f7fb56
Sep 14, 2022
- Updated Snakemake wrapper · fe1ff607
  Christian Arnold authored 2 years ago
  
  fe1ff607
Jun 14, 2022
- Small fixes · 6fa4b771
  Christian Arnold authored 2 years ago
  
  6fa4b771
Jun 10, 2022
- Update functions.R · 594924be
  Christian Arnold authored 2 years ago
  
  594924be
Jun 02, 2022
- Fix for 0 consensus peaks resulting from DiffBind column rename · e37f923d
  Christian Arnold authored 2 years ago
  
  e37f923d
- Added missing rules to cluster.config for enhanced customization · cddd2087
  Christian Arnold authored 2 years ago
  
  cddd2087
May 30, 2022
- Removed the replicate_No column as requirement from the sample file · e7e22fba
  Christian Arnold authored 2 years ago
  
  e7e22fba
May 17, 2022
- Fixed bug with new DiffBind that causes 0 consensus peaks · 61619e98
  Christian Arnold authored 2 years ago
  
  61619e98
- Fixed typo · 435af719
  Christian Arnold authored 2 years ago
  
  435af719
May 09, 2022
- Fixed an issue with CIP-seq when no control files were given · 37349390
  Christian Arnold authored 2 years ago
  
  37349390
- Fixed an issue where the annotation rule fails for edge cases where the peak file is empty · f31381e0
  Christian Arnold authored 2 years ago
  
  f31381e0
- removed groups, they seem to cause additional /scratch caching issues. Removed... · db3ebb78
  Christian Arnold authored 2 years ago
  
  removed groups, they seem to cause additional /scratch caching issues. Removed until resolved what causes this
  db3ebb78
- Fixed a bug for single-end data that causes the stats rule to fail · 078b3f7c
  Christian Arnold authored 2 years ago
  
  078b3f7c
Apr 28, 2022
- Changed the default for restart times: Set to 1 by default now · 50bc56b8
  Christian Arnold authored 2 years ago
  
  50bc56b8
- Bugfixes · 9a0221cb
  Christian Arnold authored 2 years ago
  
  9a0221cb
- Reversed change from yesterday, scripts section was accidentally removed · ec6fcff5
  Christian Arnold authored 2 years ago
  
  ec6fcff5
Apr 27, 2022
- Removed empty and obselete scripts: parameter from configs · f03f616a
  Christian Arnold authored 2 years ago
  
  f03f616a
- Modified the snakefile to make sure that a local copy should be used · 01e234ae
  Christian Arnold authored 2 years ago
  
  01e234ae
Feb 28, 2022
- Added fix for analyses with just 1 sample & param.sh snakefile clarifications · 58dd8a22
  Christian Arnold authored 3 years ago
  
  58dd8a22