Workflows

What is a Workflow?
2 Workflows visible to you, out of a total of 2
Stable

PAIRED-END workflow. Align reads on fasta reference/assembly using bwa mem, get a consensus, variants, mutation explanations.

IMPORTANT:

  • For "bcftools call" consensus step, the --ploidy file is in "Données partagées" (Shared Data) and must be imported in your history to use the worflow by providing this file (tells bcftools to consider haploid variant calling).
  • SELECT THE MOST ADAPTED VADR MODEL for annotation (see vadr parameters).

Type: Galaxy

Creator: Fabrice Touzain

Submitter: Fabrice Touzain

Stable

SINGLE-END workflow. Align reads on fasta reference/assembly using bwa mem, get a consensus, variants, mutation explanations.

IMPORTANT:

  • For "bcftools call" consensus step, the --ploidy file is in "Données partagées" (Shared Data) and must be imported in your history to use the worflow by providing this file (tells bcftools to consider haploid variant calling).
  • SELECT the mot ADAPTED VADR MODEL for annotation (see vadr parameters).

Type: Galaxy

Creator: Fabrice Touzain

Submitter: Fabrice Touzain

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