Commits · 75e44f4e7abd9340aeff42dc4068611300b6bbd3 · BioCellGen-public / sirplus

Nov 22, 2017
- Merge remote-tracking branch 'upstream/master' · 75e44f4e
  Robrecht Cannoodt authored 7 years ago
  
  75e44f4e
- Fix zinbwave installation error · b78f0b52
  Luke Zappia authored 7 years ago
  
  b78f0b52
- Bioconductor 3.6 release · b03159b9
  Luke Zappia authored 7 years ago
  
  View commits for tag v1.2.0 v1.2.0
  
  b03159b9
- Merge branch 'RELEASE_3_6' · ecc548f5
  Luke Zappia authored 7 years ago
  
  * RELEASE_3_6: bump x.y.z versions to even y prior to creation of RELEASE_3_6 branch
  ecc548f5
Nov 21, 2017
- add back all checks · 0b721366
  Robrecht Cannoodt authored 7 years ago
  
  0b721366
- remove comma · ac555f70
  Robrecht Cannoodt authored 7 years ago
  
  ac555f70
- temporarily reduce build time · 390fe112
  Robrecht Cannoodt authored 7 years ago
  
  390fe112
- added apt-get dependency for zinbwave · 2ea64a10
  Robrecht Cannoodt authored 7 years ago
  
  2ea64a10
Nov 20, 2017
- Add zimbwave to imports · 25540a98
  Wouter Saelens authored 7 years ago
  
  25540a98
Oct 31, 2017
- bump x.y.z versions to even y prior to creation of RELEASE_3_6 branch · ade2c91d
  Hervé Pagès authored 7 years ago
  
  ade2c91d
Oct 13, 2017

Version 1.1.8 · 0ab62753
Luke Zappia authored 7 years ago

View commits for tag v1.1.8 v1.1.8

0ab62753
Update lun2 reference · 4a4e17dc
Luke Zappia authored 7 years ago

4a4e17dc
Update citation · b5fed63d
Luke Zappia authored 7 years ago

b5fed63d

Luke Zappia authored 7 years ago

* basics:
  Add BASiCS to lists
  Run checks
  Convert to SingleCellExperiment
  Fix lun2Estimate error
  Fix lun2Estimate error
  Fix default MCMC iterations
  Add estimation without spike-ins
  Set default MCMC iterations
  Update BASiCSParams print method
  Add BASiCS to listSims
  Add require check to newBASiCSParams
  Add BASiCSEstimate
  Updata BASiCSParams docs
  Add batches to BASiCSSimulate
  Add batch parameters
  Add BASiCSSimulate function
  Add nSpikes parameter
  Add BASiCSParams tests
  Add BASiCSParams class

1b899848

Add BASiCS to lists · 457f5fb5
Luke Zappia authored 7 years ago

457f5fb5
Run checks · f5da0def
Luke Zappia authored 7 years ago

f5da0def
Convert to SingleCellExperiment · d828f4d3
Luke Zappia authored 7 years ago

d828f4d3

Oct 12, 2017

Merge branch 'master' into basics · 28150bf9

Luke Zappia authored 7 years ago

* master: (50 commits)
  Run checks and bump version
  Add ZINB-WaVE simulation to lists
  Convert mfaSimulate output to counts
  Convert phenoSimulate output to counts
  Add zinbEstimate
  Add zinbSimulate
  Adjust ZINBParams defaults
  Add ZINBParams tests
  Add ZINBParams
  Add pheno to lists
  Add phenoEstimate
  Add phenoSimulate
  Add PhenoParams
  Fix quotes bug in tests
  Bump version
  Add mfa tests
  Run checks
  Add mfa to lists
  Add mfaSimulate
  Add mfaEstimate
  ...

28150bf9

Oct 05, 2017
- Run checks and bump version · 2a0f5fce
  Luke Zappia authored 7 years ago
  
  View commits for tag v1.1.7 v1.1.7
  
  2a0f5fce
- Merge branch 'zinb' · ffa244a9
  Luke Zappia authored 7 years ago
  
  * zinb: Add ZINB-WaVE simulation to lists
  ffa244a9
- Add ZINB-WaVE simulation to lists · a9848416
  Luke Zappia authored 7 years ago
  
  a9848416
- Convert mfaSimulate output to counts · 9267f271
  Luke Zappia authored 7 years ago
  
  9267f271
- Merge branch 'zinb' · eafecf42
  Luke Zappia authored 7 years ago
  
  * zinb: Add zinbEstimate Add zinbSimulate Adjust ZINBParams defaults Add ZINBParams tests Add ZINBParams Fixes #14
  eafecf42
- Merge branch 'pheno' · 87959983
  Luke Zappia authored 7 years ago
  
  * pheno: Convert phenoSimulate output to counts Fixes #19
  87959983
- Convert phenoSimulate output to counts · a681f864
  Luke Zappia authored 7 years ago
  
  a681f864
- Add zinbEstimate · 321c2d0c
  Luke Zappia authored 7 years ago
  
  321c2d0c
Oct 04, 2017
- Add zinbSimulate · 07b6db66
  Luke Zappia authored 7 years ago
  
  07b6db66
- Adjust ZINBParams defaults · bac0ecf8
  Luke Zappia authored 7 years ago
  
  bac0ecf8
- Add ZINBParams tests · d6c7bab0
  Luke Zappia authored 7 years ago
  
  d6c7bab0
- Add ZINBParams · e0017803
  Luke Zappia authored 7 years ago
  
  e0017803
- Merge branch 'pheno' · 2cc9f32b
  Luke Zappia authored 7 years ago
  
  * pheno: Add pheno to lists Add phenoEstimate Add phenoSimulate Add PhenoParams Fix quotes bug in tests
  2cc9f32b
- Add pheno to lists · aa3d2663
  Luke Zappia authored 7 years ago
  
  aa3d2663
- Add phenoEstimate · 3ae99172
  Luke Zappia authored 7 years ago
  
  3ae99172
- Add phenoSimulate · 6f488ee2
  Luke Zappia authored 7 years ago
  
  6f488ee2
- Add PhenoParams · aae77a9c
  Luke Zappia authored 7 years ago
  
  aae77a9c
- Merge branch 'setup' into pheno · b4e0f76f
  Luke Zappia authored 7 years ago
  
  * setup: Fix quotes bug in tests
  b4e0f76f
- Fix quotes bug in tests · 22e3512d
  Luke Zappia authored 7 years ago
  
  22e3512d
Oct 02, 2017
- Merge branch 'master' into setup · 6fd0429b
  Luke Zappia authored 7 years ago
  
  * master: Bump version
  6fd0429b
- Bump version · 128468c8
  Luke Zappia authored 7 years ago
  
  View commits for tag v1.1.6 v1.1.6
  
  128468c8
- Merge branch 'mfa' · 0b633ea0
  Luke Zappia authored 7 years ago
  
  * mfa: Add mfa tests Add mfa to lists Add mfaSimulate Add mfaEstimate Add MFAParams
  0b633ea0