recipe bioconductor-scrapper

Bindings to C++ Libraries for Single-Cell Analysis

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-scrapper/meta.yaml

Implements R bindings to C++ code for analyzing single-cell (expression) data, mostly from various libscran libraries. Each function performs an individual step in the single-cell analysis workflow, ranging from quality control to clustering and marker detection. It is mostly intended for other Bioconductor package developers to build more user-friendly end-to-end workflows.

package bioconductor-scrapper

versions:

1.0.0-0

depends bioconductor-assorthead:

>=1.0.0,<1.1.0

depends bioconductor-assorthead:

>=1.0.0,<1.1.0a0

depends bioconductor-beachmat:

>=2.22.0,<2.23.0

depends bioconductor-beachmat:

>=2.22.0,<2.23.0a0

depends bioconductor-biocneighbors:

>=2.0.0,<2.1.0

depends bioconductor-biocneighbors:

>=2.0.0,<2.1.0a0

depends bioconductor-delayedarray:

>=0.32.0,<0.33.0

depends bioconductor-delayedarray:

>=0.32.0,<0.33.0a0

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-igraph:

depends r-rcpp:

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-scrapper

and update with::

   mamba update bioconductor-scrapper

To create a new environment, run:

mamba create --name myenvname bioconductor-scrapper

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-scrapper:<tag>

(see `bioconductor-scrapper/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-scrapper/README.html)