Ecosyste.ms: Issues
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GitHub / sequana/variant_calling issues and pull requests
#26 - if input is made of BAM, the readtag should be unset
Issue -
State: open - Opened by cokelaer about 1 month ago
Labels: enhancement
#25 - add minimap2
Pull Request -
State: closed - Opened by cokelaer 5 months ago
#24 - Add missing resources section in snpeff rule
Pull Request -
State: closed - Opened by khourhin 6 months ago
#23 - fix joint calling regression
Pull Request -
State: closed - Opened by cokelaer 6 months ago
#22 - Fix coverage (regression) and add a test
Pull Request -
State: closed - Opened by cokelaer 7 months ago
#21 - Fix wrapper tag and --from-project minimal call
Pull Request -
State: closed - Opened by cokelaer 7 months ago
#20 - update CI pypi
Pull Request -
State: closed - Opened by cokelaer 7 months ago
#19 - Update to use latest sequana_pipetools (click)
Pull Request -
State: closed - Opened by cokelaer 7 months ago
Labels: enhancement
#18 - Set sequana_coverage to False by default (to follow docstring)
Pull Request -
State: closed - Opened by khourhin 8 months ago
#17 - Fix multiqc, add genomecov
Pull Request -
State: closed - Opened by cokelaer 12 months ago
#16 - if snpeff and coverage are false, multiqc fails
Issue -
State: closed - Opened by cokelaer 12 months ago
Labels: bug
#15 - automatically set the index algorithm
Pull Request -
State: closed - Opened by cokelaer about 1 year ago
#14 - Set the bwa index algorithm automatically
Issue -
State: closed - Opened by cokelaer about 1 year ago
- 1 comment
Labels: enhancement
#13 - Use latest apptainers for graphviz and fix snpeff
Pull Request -
State: closed - Opened by cokelaer about 1 year ago
- 1 comment
#12 - Update CI
Pull Request -
State: closed - Opened by cokelaer over 1 year ago
#11 - update apptainers and add vcf to bcf
Pull Request -
State: closed - Opened by cokelaer over 1 year ago
- 1 comment
#10 - add new workflow to test singularity
Pull Request -
State: closed - Opened by cokelaer almost 2 years ago
- 1 comment
#9 - update picard
Pull Request -
State: closed - Opened by cokelaer almost 2 years ago
#8 - Fix test
Pull Request -
State: closed - Opened by cokelaer almost 2 years ago
#7 - add singularity
Pull Request -
State: closed - Opened by cokelaer almost 2 years ago
#6 - Fixing problem when there is no annotation
Pull Request -
State: closed - Opened by cokelaer over 2 years ago
#5 - pbl when there is no annotation
Issue -
State: closed - Opened by cokelaer over 2 years ago
- 1 comment
#4 - swtich from samtools to genomecov for covid
Issue -
State: closed - Opened by cokelaer over 2 years ago
- 1 comment
Labels: enhancement
#3 - implement better summary
Issue -
State: open - Opened by cokelaer almost 3 years ago
Labels: enhancement
#2 - consider implementated features found in this reference (strand bias)
Issue -
State: open - Opened by cokelaer over 3 years ago
Labels: enhancement
#1 - planned improvements
Issue -
State: open - Opened by cokelaer over 4 years ago
Labels: enhancement