recipe bioconductor-scfa

SCFA: Subtyping via Consensus Factor Analysis

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/SCFA.html

License:

LGPL

Recipe:

/bioconductor-scfa/meta.yaml

Subtyping via Consensus Factor Analysis (SCFA) can efficiently remove noisy signals from consistent molecular patterns in multi-omics data. SCFA first uses an autoencoder to select only important features and then repeatedly performs factor analysis to represent the data with different numbers of factors. Using these representations, it can reliably identify cancer subtypes and accurately predict risk scores of patients.

package bioconductor-scfa

versions:

1.12.0-0,  1.10.0-0,  1.8.0-0,  1.4.0-0,  1.2.0-0,  1.0.0-1,  1.0.0-0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0

depends r-base:

>=4.3,<4.4.0a0

depends r-cluster:

depends r-coro:

depends r-glmnet:

depends r-igraph:

depends r-matrix:

depends r-matrixstats:

depends r-psych:

depends r-rhpcblasctl:

depends r-survival:

depends r-torch:

>=0.3.0

requirements:

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 bioconductor-scfa

and update with::

   mamba update bioconductor-scfa

To create a new environment, run:

mamba create --name myenvname bioconductor-scfa

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/bioconductor-scfa:<tag>

(see `bioconductor-scfa/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-scfa/README.html)