recipe ancestry_hmm

Software for local ancestry inference

Homepage:

https://github.com/russcd/Ancestry_HMM

License:

GPL3

Recipe:

/ancestry_hmm/meta.yaml

Links:

doi: 10.1371/journal.pgen.1006529

A hidden Markov model approach for simultaneously estimating local ancestry and admixture time using next generation sequence data in samples of arbitrary ploidy.

package ancestry_hmm

versions:

1.0.2-3,  1.0.2-2,  1.0.2-1,  1.0.2-0

depends armadillo:

>=14.2,<15.0a0

depends libgcc:

>=13

depends libstdcxx:

>=13

depends selam:

requirements:

additional platforms:

linux-aarch64

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

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 ancestry_hmm

and update with::

   mamba update ancestry_hmm

To create a new environment, run:

mamba create --name myenvname ancestry_hmm

with myenvname being 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/ancestry_hmm:<tag>

(see `ancestry_hmm/tags`_ for valid values for ``<tag>``)

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