- recipe bioconductor-excluderanges
Genomic coordinates of problematic genomic regions
MIT + file LICENSE
Genomic coordinates of problematic genomic regions that should be avoided when working with genomic data. GRanges of exclusion regions (formerly known as blacklisted), centromeres, telomeres, known heterochromatin regions, etc. (UCSC 'gap' table data). Primarily for human and mouse genomes, hg19/hg38 and mm9/mm10 genome assemblies.
- package bioconductor-excluderanges¶
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-excluderanges and update with:: mamba update bioconductor-excluderanges
To create a new environment, run:
mamba create --name myenvname bioconductor-excluderanges
myenvnamebeing 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-excluderanges:<tag> (see `bioconductor-excluderanges/tags`_ for valid values for ``<tag>``)