recipe bioconductor-splatter

Simple Simulation of Single-cell RNA Sequencing Data

Homepage:

https://bioconductor.org/packages/3.17/bioc/html/splatter.html

License:

GPL-3 + file LICENSE

Recipe:

/bioconductor-splatter/meta.yaml

Splatter is a package for the simulation of single-cell RNA sequencing count data. It provides a simple interface for creating complex simulations that are reproducible and well-documented. Parameters can be estimated from real data and functions are provided for comparing real and simulated datasets.

package bioconductor-splatter

versions:

1.24.0-0,  1.22.0-0,  1.18.1-0,  1.16.1-0,  1.14.1-0,  1.14.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-1, 

1.24.0-0,  1.22.0-0,  1.18.1-0,  1.16.1-0,  1.14.1-0,  1.14.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-1,  1.6.1-0,  1.4.3-0,  1.2.1-0

depends bioconductor-biocgenerics:

>=0.46.0,<0.47.0

depends bioconductor-biocparallel:

>=1.34.0,<1.35.0

depends bioconductor-edger:

>=3.42.0,<3.43.0

depends bioconductor-s4vectors:

>=0.38.0,<0.39.0

depends bioconductor-scuttle:

>=1.10.0,<1.11.0

depends bioconductor-singlecellexperiment:

>=1.22.0,<1.23.0

depends bioconductor-summarizedexperiment:

>=1.30.0,<1.31.0

depends r-base:

>=4.3,<4.4.0a0

depends r-checkmate:

>=2.0.0

depends r-crayon:

depends r-fitdistrplus:

depends r-locfit:

depends r-matrixstats:

depends r-rlang:

depends r-withr:

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-splatter

and update with::

   mamba update bioconductor-splatter

To create a new environment, run:

mamba create --name myenvname bioconductor-splatter

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-splatter:<tag>

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

Download stats

Link to this page

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