recipe bioconductor-scry

Small-Count Analysis Methods for High-Dimensional Data

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/scry.html

License:

Artistic-2.0

Recipe:

/bioconductor-scry/meta.yaml

Many modern biological datasets consist of small counts that are not well fit by standard linear-Gaussian methods such as principal component analysis. This package provides implementations of count-based feature selection and dimension reduction algorithms. These methods can be used to facilitate unsupervised analysis of any high-dimensional data such as single-cell RNA-seq.

package bioconductor-scry

versions:

1.18.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-1,  1.2.0-0,  1.0.0-0

depends bioconductor-biocsingular:

>=1.22.0,<1.23.0

depends bioconductor-delayedarray:

>=0.32.0,<0.33.0

depends bioconductor-singlecellexperiment:

>=1.28.0,<1.29.0

depends bioconductor-summarizedexperiment:

>=1.36.0,<1.37.0

depends r-base:

>=4.4,<4.5.0a0

depends r-glmpca:

>=0.2.0

depends r-matrix:

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-scry

and update with::

   mamba update bioconductor-scry

To create a new environment, run:

mamba create --name myenvname bioconductor-scry

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-scry:<tag>

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

Download stats

Link to this page

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