recipe bioconductor-compass

Combinatorial Polyfunctionality Analysis of Single Cells

Homepage

https://bioconductor.org/packages/3.10/bioc/html/COMPASS.html

License

Artistic-2.0

Recipe

/bioconductor-compass/meta.yaml

Links

biotools: compass, doi: 10.1038/nbt.3187

COMPASS is a statistical framework that enables unbiased analysis of antigen-specific T-cell subsets. COMPASS uses a Bayesian hierarchical framework to model all observed cell-subsets and select the most likely to be antigen-specific while regularizing the small cell counts that often arise in multi-parameter space. The model provides a posterior probability of specificity for each cell subset and each sample, which can be used to profile a subject’s immune response to external stimuli such as infection or vaccination.

package bioconductor-compass

Versions

1.24.0-0, 1.22.0-1, 1.22.0-0, 1.20.1-0, 1.20.0-0, 1.18.1-0, 1.18.0-0, 1.16.0-0

Depends

• bioconductor-biocstyle >=2.14.0,<2.15.0

• libgcc-ng >=7.3.0

• libstdcxx-ng >=7.3.0

• r-abind

• r-base >=3.6,<3.7.0a0

• r-clue

• r-data.table

• r-dplyr

• r-knitr

• r-magrittr

• r-pdist

• r-plyr

• r-rcolorbrewer

• r-rcpp >=0.11.0

• r-reshape2

• r-rlang

• r-rmarkdown

• r-scales

• r-tidyr

Required By

Installation

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

conda install bioconductor-compass

and update with:

conda update bioconductor-compass

or use the docker container:

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

(see bioconductor-compass/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-compass/README.html)