- recipe bioconductor-msa2dist
MSA2dist calculates pairwise distances between all sequences of a DNAStringSet or a AAStringSet using a custom score matrix and conducts codon based analysis
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/MSA2dist.html
- License:
GPL-3 + file LICENSE
- Recipe:
MSA2dist calculates pairwise distances between all sequences of a DNAStringSet or a AAStringSet using a custom score matrix and conducts codon based analysis. It uses scoring matrices to be used in these pairwise distance calcualtions which can be adapted to any scoring for DNA or AA characters. E.g. by using literal distances MSA2dist calcualtes pairwise IUPAC distances.
- package bioconductor-msa2dist¶
-
- Versions:
1.2.0-0
- Depends:
bioconductor-biostrings
>=2.66.0,<2.67.0
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-iranges
>=2.32.0,<2.33.0
libblas
>=3.9.0,<4.0a0
libgcc-ng
>=12
liblapack
>=3.9.0,<4.0a0
libstdcxx-ng
>=12
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-msa2dist
and update with:
conda update bioconductor-msa2dist
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-msa2dist:<tag>
(see bioconductor-msa2dist/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-msa2dist/README.html)