findBATCH: A function to formally tests presence of batch effect.
In syspremed/exploBATCHSerial: Explore batch effect (exploBATCH) is a package for discovering and correcting for batch effect using an approach in Nyamundanda et al (2016).

It searches for directions in the principal subspace that are associated with the batch variable.

1	findBATCH(res2, res1, nt, rerun)

`res2`	Results of running findBATCH to assess batch effect.
`res1`	Results of the PPCCA model with the optimal number of PCs
`nt`	Number of biological classes.
`rerun`	Results of running findBATCH to assess biological effect.

It searches for directions in the principal subspace that are associated with the batch variable.

Results in findBATCH folder in the working directory.

Gift Nyamundanda and Anguraj Sadanandam

Nyamundanda, G. and Sadanandam, A., 2016. A statistical method for evaluating and correcting batch effects in genomic data.

1
2
3

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

syspremed/exploBATCHSerial documentation built on May 20, 2019, 8:33 a.m.

syspremed/exploBATCHSerial index

Note that we can't provide technical support on individual packages. You should contact the package authors for that.

Description