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This repository has been archived by the owner on Nov 29, 2021. It is now read-only.

Releases: tdayris-perso/vcf-annotate-snpeff-snpsift

v2.1

10 Apr 08:24
@tdayris-perso tdayris-perso
2.1
365fa3b
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v2.1 Latest
Latest

Updates

  • Snakemake update
  • Snakemae wrappers update
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v2.0

31 Mar 13:46
@tdayris-perso tdayris-perso
2.0
af8f407
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v2.0

New

  • SnpSift varType
  • prepare_design.py and prepare_config.py merged into a single prepare_pipeline.py
  • VCF automatically indexed
  • VCF no longer in report
  • Makefile redesigned

Updates

  • Snakemake up to version 5.13
  • Python up to version 3.8
  • SnpSift completely wrapped
  • Compression paralleled

Documentation

  • Profiles added in documentation
  • FAQ now available
  • Citations detailed in final report
Assets 2
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v1.0.1

27 Jan 15:33
@tdayris-perso tdayris-perso
1.0.1
f3fa669
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v1.0.1

Minor changes in the report.

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v1.0

24 Jan 10:06
@tdayris-perso tdayris-perso
1.0
c416060
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v1.0

Initial release

This workflow performs classic VCF/BCF annotation with SnpEff/SnpSift, supported by BCFTools to handle calling files formats. This pipeline is powered by Snakemake and the Snakemake Wrappers.

Features

  • Test the pipeline with the makefile
  • Run the pipeline with Snakemake
  • Prepare configuration and design file with provided python scripts
Assets 2
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