recipe bioconductor-lymphoseq

Analyze high-throughput sequencing of T and B cell receptors

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-lymphoseq/meta.yaml

This R package analyzes high-throughput sequencing of T and B cell receptor complementarity determining region 3 (CDR3) sequences generated by Adaptive Biotechnologies' ImmunoSEQ assay. Its input comes from tab-separated value (.tsv) files exported from the ImmunoSEQ analyzer.

package bioconductor-lymphoseq

Versions:

1.26.0-0,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.10.0-0

Depends:

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-ggtree >=3.6.0,<3.7.0

• bioconductor-lymphoseqdb >=0.99.0,<0.100.0

• bioconductor-msa >=1.30.0,<1.31.0

• r-base >=4.2,<4.3.0a0

• r-circlize

• r-data.table

• r-dplyr

• r-ggplot2

• r-ineq

• r-phangorn

• r-plyr

• r-rcolorbrewer

• r-reshape

• r-stringdist

• r-upsetr

• r-venndiagram

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-lymphoseq

and update with:

conda update bioconductor-lymphoseq

or use the docker container:

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

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

Download stats

Link to this page

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