Published December 15, 2021
| Version v1.2.9
Software
Open
bcbio/bcbio-nextgen:
Creators
- Brad Chapman1
- Rory Kirchner2
- Lorena Pantano3
- Sergey Naumenko
- Matthias De Smet4
- Luca Beltrame
- Tetiana Khotiainsteva
- Ilya Sytchev5
- Roman Valls Guimera6
- John Kern
- Christian Brueffer7
- Vlad Savelyev8
- Guillermo Carrasco9
- Mario Giovacchini10
- Miika Ahdesmaki11
- Paul Tang12
- Sehrish Kanwal13
- James J Porter14
- Steffen Möller15
- Vang Le16
- Alexandru Coman17
- bogdang989
- Valentine Svensson18
- Brent Pedersen19
- Jeff Hammerbacher
- Matt Edwards
- Meeta Mistry20
- apastore
- Peter Cock
- Joon Yoon
- 1. Ginkgo Bioworks
- 2. Patch Biosciences
- 3. Harvard Chan School of Public Health
- 4. @CenterForMedicalGeneticsGhent
- 5. @hsph-qbrc @onnela-lab
- 6. University of Melbourne
- 7. SAGA Diagnostics / Lund University
- 8. @populationgenomics
- 9. @iZettle
- 10. Science for Life Laboratory
- 11. AstraZeneca
- 12. startup
- 13. The University of Melbourne
- 14. Recurse Center
- 15. University of Rostock
- 16. Aalborg University
- 17. @tss-yonder
- 18. Serqet Therapeutics
- 19. University of Utrecht
- 20. HSPH
Description
- Fix vcf header bug: T/N SAMPLE lines are back - needed for import to SolveBio
- add strandedness: auto for -l A option in salmon
- report 10x more peaks in CHIP/ATAC-seq - use 0.05 qvalue
- fix misleading RNA-seq duplicated reads statistics: thanks @sib-bcf
- reorganize conda environments
- snpEff 5.0
- strandedness: auto
- document WGBS pipeline steps
- make --local an option, not default in bismark alignment - too slow
- bcbioRNASeq update to 0.3.44
- pureCN update to 2.0.1
- octopus update to 0.7.4
Files
bcbio/bcbio-nextgen-v1.2.9.zip
Files
(17.8 MB)
| Name | Size | Download all |
|---|---|---|
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md5:f2f349a21c74b8d62e3283843dcaebae
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17.8 MB | Preview Download |
Additional details
Related works
- Is supplement to
- https://github.com/bcbio/bcbio-nextgen/tree/v1.2.9 (URL)