recipe kpop

An assembly-free and scalable method for the comparative analysis of microbial genomes, based on full k-mer spectra and dataset-specific transformations.

Homepage:

https://github.com/PaoloRibeca/KPop

License:

GPL-3.0-only

Recipe:

/kpop/meta.yaml

Links:

doi: 10.1101/2022.06.22.497172

KPop is an assembly-free and scalable method for the comparative analysis of microbial genomes, based on full k-mer spectra and dataset-specific transformations. It is built using OCaml <https://ocaml.org> and R <https://www.r-project.org/>.

package kpop

(downloads) docker_kpop

versions:

1.1.1-1,  1.1.1-0

depends bash:

>=4.4.20

depends r-ca:

depends r-data.table:

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 kpop

and update with::

   mamba update kpop

To create a new environment, run:

mamba create --name myenvname kpop

with myenvname being 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/kpop:<tag>

(see `kpop/tags`_ for valid values for ``<tag>``)

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Link to this page

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