yeast_nbinomTest_results {ELBOW} | R Documentation

## Pre-processed Yeast sample RNA-seq data

### Description

Pre-processed Yeast sample RNA-seq data, obtained from the website: http://cgrlucb.wikispaces.com/Spring+2012+DESeq+Tutorial

For more information, please contact the author of the webpage.

The content from the tutorial's webpage is licensed as follows: Contributions to http://cgrlucb.wikispaces.com/ are licensed under a Creative Commons Attribution Share-Alike 3.0 License. Creative Commons Attribution Share-Alike 3.0 License.

### Usage

    yeast_nbinomTest_results

### Format

An 8 column table defined as such:

- id — the Gene ID reprented by the row

- baseMean — mean estimated from both conditions (with normalization by size factors)

- baseMeanA — mean estimated from the first condition specified as an argument to nbinomTest (in this case, “M”)

- baseMeanB — mean estimated from the second condition (in this case, “WE”)

- foldChange — ratio of the estimated means

- log2FoldChange — log2 of the ratio

- pval — uncorrected p-value from the negative binomial test

- padj — p-value adjusted for multiple testing using Benjamini-Hochberg to estimate the false discovery rate

- resVarA — dispersion estimated from the first condition

- resVarB — dispersion estimated from the second condition

### Source

http://cgrlucb.wikispaces.com/Spring+2012+DESeq+Tutorial

### References

Lee, H. “Spring 2012 DESeq Tutorial.” http://cgrlucb.wikispaces.com/Spring+2012+DESeq+Tutorial

[Package ELBOW version 1.16.0 Index]