ber: Batch Effects Removal

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The functions in this package remove batch effects from microarrary normalized data. The expression levels of the genes are represented in a matrix where rows correspond to independent samples and columns to genes (variables). The batches are represented by categorical variables (objects of class factor). When further covariates of interest are available they can be used to remove efficiently the batch effects and adjust the data.

Author
Marco Giordan
Date of publication
2013-03-12 10:01:16
Maintainer
Marco Giordan <marco.giordan@fmach.it>
License
GPL-2
Version
4.0

View on CRAN

Man pages

ber
Batch Effects Removal
ber_bg
Batch Effects Removal using Bagging
combat_np
non-parametric combat
combat_p
parametric combat
mean_centering
mean_centering
standardization
standardization

Files in this package

ber
ber/MD5
ber/DESCRIPTION
ber/NAMESPACE
ber/R
ber/R/ber.r
ber/R/ber_bg.r
ber/R/combat_np.r
ber/R/combat_p.r
ber/R/standardization.r
ber/R/mean_centering.r
ber/man
ber/man/mean_centering.Rd
ber/man/ber_bg.Rd
ber/man/combat_p.Rd
ber/man/ber.Rd
ber/man/combat_np.Rd
ber/man/standardization.Rd