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pytximport 0.4.0
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@maltekuehl maltekuehl released this 17 Jun 14:43
· 85 commits to main since this release
0.4.0
eb58730
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Learn about vigilant mode.

API

  • Added a new count transformation for differential transcript usage analysis: dtu_scaled_tpm (dtuScaledTPM in R-version of tximport)
  • Added a utility function for renaming transcript-level exports with the transcript name: utils.replace_transcript_ids_with_names.
  • When using biotype filtering, the TPM values will now be rescaled to match the sum of the TPM values before filtering.
  • Apply biotype filtering, ignore transcript version and ignore after bar for transcript-level exports as well.
  • Bug fix: Saving to files when exporting transcript-level counts works now.

Other changes

  • Moved transcript version removal into the utility function remove_transcript_version and biotype filtering into the utility function filter_by_biotype.
  • Always run unittests locally for each commit with pre-commit.
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