returnRPKM

Count data frame, e.g. from an RNA-Seq experiment.

counts

<code>GRangesList</code> object, e.g. generated by <code>exonsBy(txdb, by="gene")</code>.

ranges

Converts read counts to RPKM normalized values.

utilities

R package for building and running automated end-to-end analysis workflows for a wide range of next generation sequence (NGS) applications such as RNA-Seq, ChIP-Seq, VAR-Seq and Ribo-Seq. Important features include a uniform workflow interface across different NGS applications, automated report generation, and support for running both R and command-line software, such as NGS aligners or peak/variant callers, on local computers or compute clusters. Efficient handling of complex sample sets and experimental designs is facilitated by a consistently implemented sample annotation infrastructure. Instructions for using systemPipeR are given in the Overview Vignette (HTML). The remaining Vignettes, linked below, are workflow templates for common NGS use cases.

returnRPKM: RPKM Normalization

Description

Usage

Arguments

Value

Examples