Skip to content

Issues: hammerlab/biokepi

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

85 Open 142 Closed
85 Open 142 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

bam_left_align's ~reference_build argument? question
#477 opened Jul 5, 2017 by smondet
2
Better estimate each job's resource requirements and encode them into Biokepi as defaults enhancement
#476 opened Jun 26, 2017 by armish
1
Topiary fails to auto-detect reference genome for Varscan VCFs
#475 opened Jun 23, 2017 by armish
MuTect2 can silently fail and output an empty VCF bug
#471 opened May 25, 2017 by ihodes
Add Bfx.validate_bam target library
#462 opened May 2, 2017 by tavinathanson
2
Move more Input.t constructors into Biokepi enhancement
#461 opened May 2, 2017 by ihodes
Fill in the gaps to cover the most basic needs of a bfx pipeline enhancement target library
#451 opened Apr 19, 2017 by armish
Fix hlarp hack
#447 opened Apr 4, 2017 by hammer
@ihodes
1
Save JSON/CSV manifests automatically enhancement
#444 opened Mar 27, 2017 by tavinathanson
1
Cufflinks segfaults on every run tool-bug
#442 opened Mar 24, 2017 by tavinathanson
Use new hg19 we host bug
#433 opened Feb 27, 2017 by ihodes
1
Implement OptiType pre-filtering step enhancement
#426 opened Feb 14, 2017 by tavinathanson
3
For tools where there is a bioconda recipe is available, use conda for install/ensure procedures enhancement
#417 opened Feb 8, 2017 by armish
@armish
Make generalizable HTML manifest for Bfx.save targets enhancement
#415 opened Feb 6, 2017 by ihodes
Add FastqScreen enhancement
#408 opened Jan 31, 2017 by ihodes
Installing igvxml.0.0.6 fails in test example
#403 opened Jan 4, 2017 by julia326
1
Name library properly in BWA-MEM bug
#401 opened Dec 22, 2016 by ihodes
2
dbsnp for b37 decoy (and probably others) is no longer hostes by the Broad where we expect bug
#398 opened Dec 16, 2016 by ihodes
1
Add "sample_name" field to a new fastqc_result product type enhancement
#387 opened Dec 6, 2016 by ihodes
Support TTFI implementation of indel_realigner for n bams enhancement
#385 opened Dec 1, 2016 by ihodes
Add a fastq_of_inputs like fastq_of_input enhancement
#384 opened Nov 30, 2016 by ihodes
Support InsertSizeMetrics tool from Picard enhancement
#379 opened Oct 27, 2016 by ihodes
1
Add PEAR for merging overlapping paired-end reads enhancement target library
#378 opened Oct 26, 2016 by iskandr
2
Add support for FusionCatcher target library
#368 opened Sep 29, 2016 by iskandr
4
Reference genomes need a new abstractions doc question
#365 opened Sep 27, 2016 by ihodes
3
ProTip! Add no:assignee to see everything that’s not assigned.