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Issues to be solved before publication #39

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lippunej opened this issue May 2, 2023 · 0 comments
Open

Issues to be solved before publication #39

lippunej opened this issue May 2, 2023 · 0 comments
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@lippunej
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lippunej commented May 2, 2023 •
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first priority

  1. convert steps in build_refgenomes.smk to a separate Python script. The user only needs to run it when an update of HBVdb is needed.
  2. Improve the visuals of the HTML report: with CSS.
  3. Make sure Docker image is correctly built and pushed

second priority

  1. rename biokit to bksnake
  2. document correct_bam
  3. check consistency: use shell directly if necessary, not run: shell(shell), for instance in varscan_vc.smk
  4. separate snakemake (.smk) files from python functions (.py)
  5. Update reference data in repository
@lippunej lippunej self-assigned this May 2, 2023
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