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* files created for createsompon, script written, meta written, still needs tests * updated to 2.0.0 method input, however this requires a genomicsDB input now * script finished, meta yaml updated. Tests working locally, test yaml made, needs genomicsdb example on nf-core to run repository tests * versions updated, issue with test data not able to download directory * updated tests to include repo-side data * Apply suggestions from code review * Update modules/gatk4/createsomaticpanelofnormals/main.nf * temp commit to allow checkout * updated createsompon tests to use tarred gendb * resolve conflict * Update tests/modules/gatk4/createsomaticpanelofnormals/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> Co-authored-by: GCJMackenzie <gavin.mackenzie@nibsc.org> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> |
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| .. | ||
| applybqsr | ||
| baserecalibrator | ||
| bedtointervallist | ||
| calculatecontamination | ||
| createsequencedictionary | ||
| createsomaticpanelofnormals | ||
| estimatelibrarycomplexity | ||
| fastqtosam | ||
| filtermutectcalls | ||
| genomicsdbimport | ||
| getpileupsummaries | ||
| haplotypecaller | ||
| intervallisttools | ||
| learnreadorientationmodel | ||
| markduplicates | ||
| mergebamalignment | ||
| mergevcfs | ||
| mutect2 | ||
| revertsam | ||
| samtofastq | ||
| splitncigarreads | ||
| variantfiltration | ||