- recipe ancestry_hmm
Software for local ancestry inference
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¶
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
myenvnamebeing 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>``)