tximport-package: Tximport package: import transcript-level quantification data

In tximport: Import and summarize transcript-level estimates for transcript- and gene-level analysis

Description

The tximport package is designed to simplify import of transcript-level abundances (TPM), estimated counts, and effective lengths from a variety of upstream tools, for downstream transcript-level or gene-level analysis. It has no dependencies beyond R, so as to minimize requirements for downstream packages making use of tximport.

Details

The main function has the same name as the package:

• tximport - with key arguments: files, type, txOut, and tx2gene

All software-related questions should be posted to the Bioconductor Support Site:

https://support.bioconductor.org

The code can be viewed at the GitHub repository, which also lists the contributor code of conduct:

https://github.com/mikelove/tximport

Author(s)

Charlotte Soneson, Michael I. Love, Mark D. Robinson

References

Charlotte Soneson, Michael I. Love, Mark D. Robinson (2015) Differential analyses for RNA-seq: transcript-level estimates improve gene-level inferences. F1000Research. http://doi.org/10.12688/f1000research.7563

tximport documentation built on Nov. 8, 2020, 8:20 p.m.