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Published July 26, 2023 | Version v0.4.0
Software Open

epi2me-labs/wf-clone-validation: v0.4.0

Authors/Creators

  • 1. @Birkbeck
  • 2. Oxford Nanopore Technologies
  • 3. @nanoporetech

Description

Added

  • Documentation updated to include workflow steps.
  • Full plasmid assembly mean quality table in report.
  • Output a fastq of the final assembly.
  • Insert reference, if provided, will now be used to variant call insert consensus with bcftools.

Removed

  • Unused packages from the container.

Changed

  • Enum choices are enumerated in the --help output
  • Enum choices are enumerated as part of the error message when a user has selected an invalid choice
  • Bumped minimum required Nextflow version to 22.10.8
  • Updated GitHub issue templates to force capture of more information.
  • Reference parameter changed to --insert_reference.
  • Updated example command displayed when running --help
  • Parameter--approx_size_sheet no longer accepted, instead use sample sheet with optional additional column approx_size.
  • Any sample aliases that contain spaces will be replaced with underscores.

Fixed

  • Replaced --threads option in fastqingress with hardcoded values to remove warning about undefined param.threads
  • Annotation output bed file has correct notation for strand.

Files

epi2me-labs/wf-clone-validation-v0.4.0.zip

Files (3.6 MB)

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md5:ecd0d794a7701b1a0bf0ba067a4fb781
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Additional details

Related works

Is supplement to
Software: https://github.com/epi2me-labs/wf-clone-validation/tree/v0.4.0 (URL)

Software

Repository URL
https://github.com/epi2me-labs/wf-clone-validation