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feat: create bam_to_fastq process #14

Merged
merged 9 commits into from
Oct 19, 2023
Merged

feat: create bam_to_fastq process #14

merged 9 commits into from
Oct 19, 2023

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kelly-sovacool
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@kelly-sovacool kelly-sovacool commented Oct 19, 2023 •
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Changes

New module custom/bam_to_fastq to convert BAM files to fastq. Uses samtools if single end or picard if paired end.

Issues

towards CCBR/CHAMPAGNE#117

PR Checklist

(Strikethrough any points that are not applicable.)

  • This comment contains a description of changes with justifications, with any relevant issues linked.
  • Write unit tests for any new features, bug fixes, or other code changes.
  • Update docs if there are any API changes.
  • Update CHANGELOG.md with a short description of any user-facing changes and reference the PR number. Guidelines: https://keepachangelog.com/en/1.1.0/

@kelly-sovacool kelly-sovacool marked this pull request as ready for review October 19, 2023 23:09
@kelly-sovacool kelly-sovacool merged commit 4d44255 into main Oct 19, 2023
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@kelly-sovacool kelly-sovacool deleted the bam-to-fastq branch October 19, 2023 23:09
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