recipe bioconductor-depecher

Determination of essential phenotypic elements of clusters in high-dimensional entities

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-depecher/meta.yaml

The purpose of this package is to identify traits in a dataset that can separate groups. This is done on two levels. First, clustering is performed, using an implementation of sparse K-means. Secondly, the generated clusters are used to predict outcomes of groups of individuals based on their distribution of observations in the different clusters. As certain clusters with separating information will be identified, and these clusters are defined by a sparse number of variables, this method can reduce the complexity of data, to only emphasize the data that actually matters.

package bioconductor-depecher

versions:

1.22.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-1,  1.14.0-0,  1.10.0-2,  1.10.0-1,  1.10.0-0,  1.8.0-0, 

1.22.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-1,  1.14.0-0,  1.10.0-2,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-1,  1.6.0-0,  1.4.0-0,  1.2.0-0,  1.0.3-0

depends bioconductor-mixomics:

>=6.30.0,<6.31.0

depends bioconductor-mixomics:

>=6.30.0,<6.31.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc:

>=13

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx:

>=13

depends r-base:

>=4.4,<4.5.0a0

depends r-beanplot:

>=1.2

depends r-clusterr:

>=1.3.2

depends r-collapse:

>=1.9.2

depends r-dosnow:

>=1.0.16

depends r-dplyr:

>=0.7.8

depends r-fnn:

>=1.1.3

depends r-foreach:

>=1.4.4

depends r-ggplot2:

>=3.1.0

depends r-gmodels:

>=2.18.1

depends r-gplots:

>=3.0.1

depends r-mass:

>=7.3.51

depends r-matrixstats:

>=0.54.0

depends r-moments:

>=0.14

depends r-rcpp:

>=1.0.0

depends r-rcppeigen:

depends r-reshape2:

>=1.4.3

depends r-robustbase:

>=0.93.5

depends r-viridis:

>=0.5.1

requirements:

additional platforms:

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-depecher

and update with::

   mamba update bioconductor-depecher

To create a new environment, run:

mamba create --name myenvname bioconductor-depecher

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-depecher:<tag>

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

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