recipe bioconductor-screpertoire

A toolkit for single-cell immune receptor profiling

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/scRepertoire.html

License:

GPL-2

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:

1.8.0-0,  1.4.0-0,  1.2.0-0,  1.0.0-1,  1.0.0-0

Depends:

• bioconductor-powertcr >=1.18.0,<1.19.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-doparallel

• r-dplyr

• r-ggalluvial

• r-ggplot2

• r-ggraph

• r-igraph

• r-plyr

• r-reshape2

• r-rlang

• r-seuratobject

• r-stringdist

• r-stringr

• r-tidygraph

• r-vegan

Required By:

Installation

With an activated Bioconda channel (see 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)