recipe bioconductor-simpic

simPIC: flexible simulation of paired-insertion counts for single-cell ATAC-sequencing data

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-simpic/meta.yaml

simPIC is a package for simulating single-cell ATAC-seq count data. It provides a user-friendly, well documented interface for data simulation. Functions are provided for parameter estimation, realistic scATAC-seq data simulation, and comparing real and simulated datasets.

package bioconductor-simpic

versions:

1.2.0-0

depends bioconductor-biocgenerics:

>=0.52.0,<0.53.0

depends bioconductor-s4vectors:

>=0.44.0,<0.45.0

depends bioconductor-scuttle:

>=1.16.0,<1.17.0

depends bioconductor-singlecellexperiment:

>=1.28.0,<1.29.0

depends bioconductor-summarizedexperiment:

>=1.36.0,<1.37.0

depends r-actuar:

depends r-base:

>=4.4,<4.5.0a0

depends r-checkmate:

>=2.0.0

depends r-fitdistrplus:

depends r-matrix:

depends r-matrixstats:

depends r-rlang:

depends r-scales:

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-simpic

and update with::

   mamba update bioconductor-simpic

To create a new environment, run:

mamba create --name myenvname bioconductor-simpic

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-simpic:<tag>

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