- recipe bioconductor-gmapr
An R interface to the GMAP/GSNAP/GSTRUCT suite
- Homepage
- License
Artistic-2.0
- Recipe
GSNAP and GMAP are a pair of tools to align short-read data written by Tom Wu. This package provides convenience methods to work with GMAP and GSNAP from within R. In addition, it provides methods to tally alignment results on a per-nucleotide basis using the bam_tally tool.
- package bioconductor-gmapr¶
-
- Versions
1.36.0-1
,1.36.0-0
,1.34.0-0
,1.32.0-2
,1.32.0-1
,1.32.0-0
,1.30.0-0
,1.28.0-0
,1.26.0-1
,1.36.0-1
,1.36.0-0
,1.34.0-0
,1.32.0-2
,1.32.0-1
,1.32.0-0
,1.30.0-0
,1.28.0-0
,1.26.0-1
,1.24.1-0
- Depends
bioconductor-biobase
>=2.54.0,<2.55.0
bioconductor-biocgenerics
>=0.40.0,<0.41.0
bioconductor-biocparallel
>=1.28.0,<1.29.0
bioconductor-biostrings
>=2.62.0,<2.63.0
bioconductor-bsgenome
>=1.62.0,<1.63.0
bioconductor-genomeinfodb
>=1.30.0,<1.31.0
bioconductor-genomicalignments
>=1.30.0,<1.31.0
bioconductor-genomicfeatures
>=1.46.0,<1.47.0
bioconductor-genomicranges
>=1.46.0,<1.47.0
bioconductor-iranges
>=2.28.0,<2.29.0
bioconductor-rsamtools
>=2.10.0,<2.11.0
bioconductor-rtracklayer
>=1.54.0,<1.55.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
bioconductor-variantannotation
>=1.40.0,<1.41.0
libblas
>=3.8.0,<4.0a0
libgcc-ng
>=10.3.0
liblapack
>=3.8.0,<4.0a0
r-base
>=4.1,<4.2.0a0
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-gmapr
and update with:
conda update bioconductor-gmapr
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-gmapr:<tag>
(see bioconductor-gmapr/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
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