- recipe mlst
Scan contig files against PubMLST typing schemes
- Homepage:
- License:
GPL / GPL-2.0
- Recipe:
- Links:
biotools: mlst
- package mlst¶
- versions:
2.23.0-1,2.23.0-0,2.22.1-0,2.22.0-0,2.19.0-1,2.19.0-0,2.18.1-0,2.18.0-0,2.17.6-1,2.23.0-1,2.23.0-0,2.22.1-0,2.22.0-0,2.19.0-1,2.19.0-0,2.18.1-0,2.18.0-0,2.17.6-1,2.17.6-0,2.16.4-0,2.16.2-1,2.16.2-0,2.16.1-0,2.16-0,2.15.2-0,2.15.1-0,2.15-0,2.14-0,2.13-0,2.12-0,2.11-0,2.10-1,2.10-0,2.9-5,2.9-4,2.9-3,2.9-2,2.9-1,2.9-0,2.6-0- depends any2fasta:
- depends blast:
>=2.9.0- depends curl:
- depends parallel:
- depends perl:
- depends perl-bioperl:
>=1.7.2- depends perl-file-which:
- depends perl-json:
- depends perl-list-moreutils:
- depends perl-lwp-protocol-https:
- depends perl-moo:
- depends zlib:
- requirements:
Installation
You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install mlst and update with:: mamba update mlst
To create a new environment, run:
mamba create --name myenvname mlst
with
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).Alternatively, use the docker container:
docker pull quay.io/biocontainers/mlst:<tag> (see `mlst/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/mlst/README.html)
