recipe bioconductor-sitepath

Phylogeny-based sequence clustering with site polymorphism

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/sitePath.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-sitepath/meta.yaml

Using site polymorphism is one of the ways to cluster DNA/protein sequences but it is possible for the sequences with the same polymorphism on a single site to be genetically distant. This package is aimed at clustering sequences using site polymorphism and their corresponding phylogenetic trees. By considering their location on the tree, only the structurally adjacent sequences will be clustered. However, the adjacent sequences may not necessarily have the same polymorphism. So a branch-and-bound like algorithm is used to minimize the entropy representing the purity of site polymorphism of each cluster.

package bioconductor-sitepath

(downloads) docker_bioconductor-sitepath

Versions:
1.14.0-01.10.2-11.10.2-01.10.0-01.8.0-01.6.3-01.6.0-01.4.0-01.2.1-0

1.14.0-01.10.2-11.10.2-01.10.0-01.8.0-01.6.3-01.6.0-01.4.0-01.2.1-01.0.2-0

Depends:
Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-sitepath

and update with:

conda update bioconductor-sitepath

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-sitepath:<tag>

(see bioconductor-sitepath/tags for valid values for <tag>)

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