Hammer2months: An example of real experiment.

In sSeq: Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size

Description

A subset of the real experiment Hammer et al. It is used as an example for running some functions in this package.

Usage

data(Hammer2months)

Format

A data.frame containing 4 columns and 29516 rows.

Details

It compares gene expression in rat strains Sprague Dawley and L5 SNL Sprague Dawley 2 at the end of two months in a factorial design. Two distinct biological libraries per condition were quantified using the Illumina platform.

Source

http://bowtie-bio.sourceforge.net/recount/

References

Hammer, P. et al. (2010). mRNA-seq with agnostic splice site discovery for nervous system transcriptomics tested in chronic pain. Genome Res., 20, 847-860.

Frazee, A. et al. (2011). ReCount: A multi-experiment resource of analysis-ready RNA-seq gene count datasets. BMC Bioinformatics, 12, 449.

Examples

data(Hammer2months);
head(countsTable);

sSeq documentation built on Nov. 8, 2020, 5:52 p.m.