Commits · f07cf7ebd0f4c51b54a4e9704d811f4d09fea12d · Thomas Weber / Mosaicatcher Update · GitLab

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Jun 12, 2018
- Add new way of normalization (right at the start). Remove old one · f07cf7eb
  Sascha Meiers authored 6 years ago
  
  f07cf7eb
Jun 05, 2018
- removed expectation-level normalization by default · f6123fc7
  Sascha Meiers authored 6 years ago
  
  f6123fc7
- New and better function to annotate expected and observed counts. Ignores bins · 09070990
  Sascha Meiers authored 6 years ago
  
  09070990
Jun 04, 2018
- Further fixes to read counting · 8873314a
  Sascha Meiers authored 6 years ago
  
  8873314a
- Replaced old function for counting reads and fixed the new one · 0cabe6c6
  Sascha Meiers authored 6 years ago
  
  0cabe6c6
- New (hoefully faster and more correct) function to add read counts and expectation · 2bea9646
  Sascha Meiers authored 6 years ago
  
  2bea9646
- More realistic count calculation - fixing bugs · 53017894
  Sascha Meiers authored 6 years ago
  
  53017894
- Ignore counts from None bins both during counting and in expectation! · e56f887b
  Sascha Meiers authored 6 years ago
  
  e56f887b
- Merge branch 'master' of https://github.com/friendsofstrandseq/pipeline · 74d6ab6d
  Sascha Meiers authored 6 years ago
  
  74d6ab6d
- Include log-likelihood-ratio filter and normalization · c6ab4003
  Sascha Meiers authored 6 years ago
  
  c6ab4003
May 30, 2018
- Add more info in plot titles · e8bcaae9
  Sascha Meiers authored 6 years ago
  
  e8bcaae9
- added a function for translating haplotype code to genotype class · a8fa0baa
  maryamghr authored 6 years ago
  
  Unverified
  
  a8fa0baa
- Merge branch 'master' of https://github.com/friendsofstrandseq/pipeline · e4ea25e5
  maryamghr authored 6 years ago
  
  e4ea25e5
- Added normalization file for 50 kb based on HGSVC trio coverage. Enable 50kb in pipeline · 2b6b6b06
  Sascha Meiers authored 6 years ago
  
  2b6b6b06
- adding an Rscript for computing jump probs · c6a62d21
  maryamghr authored 6 years ago
  
  c6a62d21
- IMPORTANT UPDATE: don't really *force* bi-allelic, just give a prior aginst other states · db955384
  Sascha Meiers authored 6 years ago
  
  db955384
- Propagate information about scalars into the final table (normalization) · 480a3cdf
  Sascha Meiers authored 6 years ago
  
  480a3cdf
- Adjust scalar to length of segment · 3d0c2f7c
  Sascha Meiers authored 6 years ago
  
  3d0c2f7c
- Added normalization on the level of NB expectation · 00d026b3
  Sascha Meiers authored 6 years ago
  
  00d026b3
- Merge branch 'master' of https://github.com/friendsofstrandseq/pipeline · bd2b4630
  Sascha Meiers authored 6 years ago
  
  bd2b4630
- fixed color in plot script · 4da3c7f0
  Sascha Meiers authored 6 years ago
  
  4da3c7f0
May 29, 2018
- added function to estimate mappability in user defined bins · ed1c2fe7
  daewoooo authored 6 years ago
  
  ed1c2fe7
May 26, 2018
- Fixed plot error · d52951cc
  Sascha Meiers authored 6 years ago
  
  d52951cc
May 25, 2018
- Move mosaiClassifier to the master branch · d83c2671
  Sascha Meiers authored 6 years ago
  
  d83c2671
- Merge branch 'mosaiClassifier' of... · 91ca5f1c
  Sascha Meiers authored 6 years ago
  
  Merge branch 'mosaiClassifier' of https://github.com/friendsofstrandseq/pipeline into mosaiClassifier
  91ca5f1c
- Add strand states to plots · 391283c2
  Sascha Meiers authored 6 years ago
  
  391283c2
May 24, 2018
- Added the previously existing rule for counting in dynamic bins · 8ff965cb
  maryamghr authored 6 years ago
  
  Unverified
  
  8ff965cb
- added log files in the SV calling rules · b57af213
  maryamghr authored 6 years ago
  
  Unverified
  
  b57af213
- send the printed output to the log file · 864a4b71
  maryamghr authored 6 years ago
  
  Unverified
  
  864a4b71
- send the printed output to the log file · bf29ae11
  maryamghr authored 6 years ago
  
  Unverified
  
  bf29ae11
- send the printed output to the log file · f299a643
  maryamghr authored 6 years ago
  
  Unverified
  
  f299a643
May 23, 2018
- removed log file from one rule · 2b4b3e79
  Sascha Meiers authored 6 years ago
  
  2b4b3e79
May 22, 2018
- Merge branch 'mosaiClassifier' of... · cb846295
  Sascha Meiers authored 6 years ago
  
  Merge branch 'mosaiClassifier' of https://github.com/friendsofstrandseq/pipeline into mosaiClassifier
  cb846295
- changed colors for het calls · d13b5652
  Sascha Meiers authored 6 years ago
  
  d13b5652
- Merge branch 'mosaiClassifier' of... · ea14793e
  Sascha Meiers authored 6 years ago
  
  Merge branch 'mosaiClassifier' of https://github.com/friendsofstrandseq/pipeline into mosaiClassifier
  ea14793e
- fixed runtime error · 5ff01a74
  Sascha Meiers authored 6 years ago
  
  5ff01a74
- adding new SCE classification --> Need to re-install MosaiCatcher C++ code! · 18374424
  Sascha Meiers authored 6 years ago
  
  18374424
May 20, 2018
- Make a check whether strand states are infact disjoint · bec9a9e6
  Sascha Meiers authored 6 years ago
  
  bec9a9e6
May 19, 2018
- Log output of mosaiClassifier to file · 5d13c900
  Tobias Marschall authored 6 years ago
  
  5d13c900
May 18, 2018
- added more segmentation desities · 042b5afa
  Sascha Meiers authored 6 years ago
  
  042b5afa