- recipe bioconductor-wgsmapp
Mappability tracks of Whole-genome Sequencing from the ENCODE Project
This package provides whole-genome mappability tracks on human hg19/hg38 assembly. We employed the 100-mers mappability track from the ENCODE Project and computed weighted average of the mappability scores if multiple ENCODE regions overlap with the same bin. “Blacklist” bins, including segmental duplication regions and gaps in reference assembly from telomere, centromere, and/or heterochromatin regions are included. The dataset consists of three assembled .bam files of single-cell whole genome sequencing from 10X for illustration purposes.
- package bioconductor-wgsmapp¶
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-wgsmapp and update with:: mamba update bioconductor-wgsmapp
To create a new environment, run:
mamba create --name myenvname bioconductor-wgsmapp
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-wgsmapp:<tag> (see `bioconductor-wgsmapp/tags`_ for valid values for ``<tag>``)