recipe bioconductor-tximport

Import and summarize transcript-level estimates for transcript- and gene-level analysis

Homepage

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

License

GPL (>=2)

Recipe

/bioconductor-tximport/meta.yaml

Links

biotools: tximport

Imports transcript-level abundance, estimated counts and transcript lengths, and summarizes into matrices for use with downstream gene-level analysis packages. Average transcript length, weighted by sample-specific transcript abundance estimates, is provided as a matrix which can be used as an offset for different expression of gene-level counts.

package bioconductor-tximport

Versions

1.14.0-0, 1.12.3-0, 1.12.1-1, 1.12.1-0, 1.12.0-0, 1.10.1-0, 1.10.0-0, 1.8.0-0, 1.6.0-0, 1.4.0-0, 1.0.3-1, 1.0.3-0

Depends

• r-base >=3.6,<3.7.0a0

Required By

• bioconductor-knowseq

• xtail

• bioconductor-tximeta

• tximport-scripts

• bioconductor-alevinqc

• r-bcbiornaseq

• bcbio-rnaseq

• bioconductor-isoformswitchanalyzer

Installation

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

conda install bioconductor-tximport

and update with:

conda update bioconductor-tximport

or use the docker container:

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

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