recipe snvphyl-tools

The SNVPhyl (Single Nucleotide Variant PHYLogenomics) pipeline is a pipeline for identifying Single Nucleotide Variants (SNV) within a collection of microbial genomes and constructing a phylogenetic tree

Homepage

https://github.com/phac-nml/snvphyl-tools

License

apache_2.0

Recipe

/snvphyl-tools/meta.yaml

package snvphyl-tools

(downloads) docker_snvphyl-tools

Versions

1.8.2-0, 1.8.1-0

Depends bcftools-snvphyl-plugin

Depends libgcc-ng

>=7.3.0

Depends mummer

Depends openssl

>=1.1.1a,<1.1.2a

Depends perl

>=5.26.2,<5.26.3.0a0

Depends perl-bioperl

>=1.7.2

Depends perl-hash-merge

Depends perl-list-moreutils

Depends perl-math-round

Depends perl-parallel-forkmanager

Depends perl-string-util

Depends perl-text-csv

Depends perl-vcftools-vcf

Depends samtools

Depends vcftools

Requirements

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install snvphyl-tools

and update with:

conda update snvphyl-tools

or use the docker container:

docker pull quay.io/biocontainers/snvphyl-tools:<tag>

(see snvphyl-tools/tags for valid values for <tag>)