recipe bioconductor-cicero

Precict cis-co-accessibility from single-cell chromatin accessibility data

Homepage

https://bioconductor.org/packages/3.11/bioc/html/cicero.html

License

MIT + file LICENSE

Recipe

/bioconductor-cicero/meta.yaml

Cicero computes putative cis-regulatory maps from single-cell chromatin accessibility data. It also extends monocle 2 for use in chromatin accessibility data.

package bioconductor-cicero

Versions

1.6.0-0,  1.4.0-0,  1.2.0-1,  1.0.14-0

Depends

• bioconductor-biobase >=2.48.0,<2.49.0

• bioconductor-biocgenerics >=0.34.0,<0.35.0

• bioconductor-genomicranges >=1.40.0,<1.41.0

• bioconductor-gviz >=1.32.0,<1.33.0

• bioconductor-iranges >=2.22.0,<2.23.0

• bioconductor-monocle >=2.16.0,<2.17.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• r-assertthat >=0.2.0

• r-base >=4.0,<4.1.0a0

• r-data.table >=1.10.4

• r-dplyr >=0.7.4

• r-fnn >=1.1

• r-ggplot2 >=2.2.1

• r-glasso >=1.8

• r-igraph >=1.1.0

• r-matrix >=1.2-12

• r-plyr >=1.8.4

• r-reshape2 >=1.4.3

• r-stringr >=1.2.0

• r-tibble >=1.4.2

• r-tidyr

• r-vgam >=1.0-5

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-cicero

and update with:

conda update bioconductor-cicero

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-cicero:<tag>

(see bioconductor-cicero/tags for valid values for <tag>)

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-cicero/README.html)