recipe bioconductor-h5vc

Managing alignment tallies using a hdf5 backend

Homepage:

https://bioconductor.org/packages/3.17/bioc/html/h5vc.html

License:

GPL (>= 3)

Recipe:

/bioconductor-h5vc/meta.yaml

This package contains functions to interact with tally data from NGS experiments that is stored in HDF5 files.

package bioconductor-h5vc

versions:

2.34.0-0,  2.32.0-1,  2.32.0-0,  2.28.0-2,  2.28.0-1,  2.28.0-0,  2.26.1-0,  2.24.0-1,  2.24.0-0, 

2.34.0-0,  2.32.0-1,  2.32.0-0,  2.28.0-2,  2.28.0-1,  2.28.0-0,  2.26.1-0,  2.24.0-1,  2.24.0-0,  2.22.0-0,  2.20.0-1,  2.18.0-1,  2.16.0-0

depends bioconductor-biocparallel:

>=1.34.0,<1.35.0

depends bioconductor-biostrings:

>=2.68.0,<2.69.0

depends bioconductor-genomeinfodb:

>=1.36.0,<1.37.0

depends bioconductor-genomicranges:

>=1.52.0,<1.53.0

depends bioconductor-h5vcdata:

>=2.20.0,<2.21.0

depends bioconductor-iranges:

>=2.34.0,<2.35.0

depends bioconductor-rhdf5:

>=2.44.0,<2.45.0

depends bioconductor-rhtslib:

>=2.2.0,<2.3.0

depends bioconductor-rsamtools:

>=2.16.0,<2.17.0

depends bioconductor-s4vectors:

>=0.38.0,<0.39.0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx-ng:

>=12

depends r-abind:

depends r-base:

>=4.3,<4.4.0a0

depends r-batchjobs:

depends r-ggplot2:

depends r-gridextra:

depends r-reshape:

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 bioconductor-h5vc

and update with::

   mamba update bioconductor-h5vc

To create a new environment, run:

mamba create --name myenvname bioconductor-h5vc

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/bioconductor-h5vc:<tag>

(see `bioconductor-h5vc/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an 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/bioconductor-h5vc/README.html)