yeast_nbinomTest_results: Pre-processed Yeast sample RNA-seq data

In ELBOW: ELBOW - Evaluating foLd change By the lOgit Way

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

ELBOW documentation built on Nov. 8, 2020, 8:14 p.m.