recipe hackgap

hackgap (hash-based counting of k-mers with gaps) provides a fast jit-compiled k-kmer counter which supports gapped k-mers.

Homepage:

https://gitlab.com/rahmannlab/hackgap

License:

MIT / MIT

Recipe:

/hackgap/meta.yaml

Links:

doi: 10.4230/LIPICS.WABI.2022.12

package hackgap

(downloads) docker_hackgap

versions:

1.0.0-0

depends bzip2:

depends numba:

>=0.60

depends numpy:

>=2

depends pigz:

depends python:

>=3.12

depends xz:

requirements:

additional platforms:

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 hackgap

and update with::

   mamba update hackgap

To create a new environment, run:

mamba create --name myenvname hackgap

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/hackgap:<tag>

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

Download stats

Link to this page

Render an install-with-bioconda badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/hackgap/README.html)