recipe bioconductor-tximport

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

Homepage

https://bioconductor.org/packages/3.14/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

1.22.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.12.3-0,  1.12.1-1,  1.12.1-0, 

1.22.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.12.3-0,  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 >=4.1,<4.2.0a0

Required By

• r-deseqanalysis

• mintie

• r-merge-kallisto

• tximport-scripts

• bioconductor-singlecelltk

• bcbio-rnaseq

• bioconductor-isoformswitchanalyzer

• r-bcbiornaseq

• bioconductor-alevinqc

• bioconductor-eventpointer

• bioconductor-bgeecall

• bioconductor-tximeta

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>)

Download stats

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