recipe bioconductor-nxtirfdata

Data for NxtIRF






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

(downloads) docker_bioconductor-nxtirfdata



depends bioconductor-biocfilecache:


depends bioconductor-data-packages:


depends bioconductor-experimenthub:


depends bioconductor-rtracklayer:


depends curl:

depends r-base:


depends r-r.utils:



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<tag>

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

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