assessComBat: Assessing ComBat corrected data

Description Usage Arguments Details Value Author(s) References Examples

View source: R/assessComBat.R

Description

Assess if batch effect still exists after ComBat batch correction.

Usage

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assessComBat(rerun1, res1, nt, rerun12)

Arguments

rerun1

Results of running findBATCH to assess batch effect.

res1

Selection of the optimal number of PCs.

nt

Number of biological classes.

rerun12

Results of running findBATCH to assess biological effect.

Details

Assess if batch effect still exists after ComBat batch correction.

Value

Results in assessComBat folder in the working directory.

Author(s)

Gift Nyamundanda and Anguraj Sadanandam

References

Nyamundanda, G. and Sadanandam, A., 2016. A novel and robust statistical method to diagnose and correct batch effects in large-scale genomic data.

Examples

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##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

syspremed/exploBATCH documentation built on April 4, 2018, 6:54 a.m.