Comments (3)
Lakshay-sethi
commented on August 30, 2024
Hi,
While testing the demo, I also faced this strand issue for a number of modules. It would be a big help if the person tacking this, could also look into other modules too.
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lkhilton
commented on August 30, 2024
Which other modules did you encounter the strand issue for?
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Kdreval
commented on August 30, 2024
New module qc in #237 replaces this module, so I will close this issue now.
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Related Issues (20)
- switch to conda installation of oncopipe HOT 6
- Autorun basic tests on thanos when master updated
- Liftover issue regarding seq_type HOT 1
- SAGE doesn't handle `chr` prefixes correctly HOT 9
- StringTie HOT 1
- Oncopipe mis-handling unmatched normal IDs HOT 1
- Add unmatched samples to demo data HOT 1
- Update documentation HOT 1
- Documenting what each tool accomplishes
- Default unmatched normal bug HOT 2
- Harmonize all CNV caller modules and automatically convert seg files to projections HOT 2
- in_module is missing from some output rules
- Refactor the LymphGen module to run per-sample HOT 1
- Missing lymphgen script HOT 5
- Mutect2 edge case error HOT 2
- finalizing seg files have an issue with special genome builds HOT 3
- Ecotyper module needs wget conda environment HOT 2
- QC module does not report the per-chromosome coverage HOT 1
- Lofreq- no INDEL calling HOT 2
- ancient flag on all samples tsv prevents rerun of gistic2 HOT 1
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