recipe bioconductor-nxtirfdata

Data for NxtIRF

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/NxtIRFdata.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-nxtirfdata/meta.yaml

NxtIRFdata is a companion package for SpliceWiz, an interactive analysis and visualization tool for alternative splicing quantitation (including intron retention) for RNA-seq BAM files. NxtIRFdata contains Mappability files required for the generation of human and mouse references. NxtIRFdata also contains a synthetic genome reference and example BAM files used to demonstrate SpliceWiz's functionality. BAM files are based on 6 samples from the Leucegene dataset provided by NCBI Gene Expression Omnibus under accession number GSE67039.

package bioconductor-nxtirfdata

versions:

1.8.0-0,  1.6.0-0,  1.4.0-0,  1.0.0-1,  1.0.0-0

depends bioconductor-biocfilecache:

>=2.10.0,<2.11.0

depends bioconductor-data-packages:

>=20231203

depends bioconductor-experimenthub:

>=2.10.0,<2.11.0

depends bioconductor-rtracklayer:

>=1.62.0,<1.63.0

depends curl:

depends r-base:

>=4.3,<4.4.0a0

depends r-r.utils:

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 bioconductor-nxtirfdata

and update with::

   mamba update bioconductor-nxtirfdata

To create a new environment, run:

mamba create --name myenvname bioconductor-nxtirfdata

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-nxtirfdata:<tag>

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

Download stats

Link to this page

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