recipe bioconductor-bsgenome.mmulatta.ucsc.rhemac2.masked

Full masked genome sequences for Macaca mulatta (UCSC version rheMac2)

Homepage

https://bioconductor.org/packages/3.11/data/annotation/html/BSgenome.Mmulatta.UCSC.rheMac2.masked.html

License

Artistic-2.0

Recipe

/bioconductor-bsgenome.mmulatta.ucsc.rhemac2.masked/meta.yaml

Full genome sequences for Macaca mulatta (Rhesus) as provided by UCSC (rheMac2, Jan. 2006) and stored in Biostrings objects. The sequences are the same as in BSgenome.Mmulatta.UCSC.rheMac2, except that each of them has the 4 following masks on top: (1) the mask of assembly gaps (AGAPS mask), (2) the mask of intra-contig ambiguities (AMB mask), (3) the mask of repeats from RepeatMasker (RM mask), and (4) the mask of repeats from Tandem Repeats Finder (TRF mask). Only the AGAPS and AMB masks are “active” by default. NOTE: In most assemblies available at UCSC, Tandem Repeats Finder repeats were filtered to retain only the repeats with period <= 12. However, the filtering was omitted for this assembly, so the TRF masks contain all Tandem Repeats Finder results.

package bioconductor-bsgenome.mmulatta.ucsc.rhemac2.masked

(downloads) docker_bioconductor-bsgenome.mmulatta.ucsc.rhemac2.masked

Versions

1.3.99-5, 1.3.99-4, 1.3.99-3, 1.3.99-0

Depends
Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-bsgenome.mmulatta.ucsc.rhemac2.masked

and update with:

conda update bioconductor-bsgenome.mmulatta.ucsc.rhemac2.masked

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-bsgenome.mmulatta.ucsc.rhemac2.masked:<tag>

(see bioconductor-bsgenome.mmulatta.ucsc.rhemac2.masked/tags for valid values for <tag>)