recipe bioconductor-screpertoire

A toolkit for single-cell immune receptor profiling

Homepage

https://bioconductor.org/packages/3.13/bioc/html/scRepertoire.html

License

Apache License 2.0

Recipe

/bioconductor-screpertoire/meta.yaml

scRepertoire was built to process data derived from the 10x Genomics Chromium Immune Profiling for both T-cell receptor (TCR) and immunoglobulin (Ig) enrichment workflows and subsequently interacts with the popular Seurat and SingleCellExperiment R packages. It also allows for general analysis of single-cell clonotype information without the use of expression information. The package functions as a wrapper for Startrac and powerTCR R packages.

package bioconductor-screpertoire

Versions

1.2.0-0,  1.0.0-1,  1.0.0-0

Depends

• bioconductor-biostrings >=2.60.0,<2.61.0

• bioconductor-powertcr >=1.12.0,<1.13.0

• bioconductor-summarizedexperiment >=1.22.0,<1.23.0

• r-base >=4.1,<4.2.0a0

• r-doparallel

• r-dplyr

• r-ggalluvial

• r-ggplot2

• r-plyr

• r-reshape2

• r-rlang

• r-stringr

• r-vegan

Required By

Installation

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

conda install bioconductor-screpertoire

and update with:

conda update bioconductor-screpertoire

or use the docker container:

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

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