recipe faststructure

A variational framework for inferring population structure from SNP genotype data. Ported to python3 by @StuntsPT based on the work of @jashapiro.

Homepage:

https://github.com/rajanil/fastStructure

License:

MIT / MIT

Recipe:

/faststructure/meta.yaml

package faststructure

(downloads) docker_faststructure

versions:

1.0-6,  1.0-5,  1.0-4,  1.0-3,  1.0-2,  1.0-1,  1.0-0

depends gsl:

>=2.8,<2.9.0a0

depends libgcc:

>=13

depends liblapack:

>=3.9.0,<3.10.0a0

depends matplotlib-base:

depends numpy:

>=1.23,<3

depends python:

>=3.11,<3.12.0a0

depends python_abi:

3.11.* *_cp311

depends scipy:

requirements:

additional platforms:
linux-aarch64,  osx-arm64

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 faststructure

and update with::

   mamba update faststructure

To create a new environment, run:

mamba create --name myenvname faststructure

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/faststructure:<tag>

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

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Link to this page

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