Harshlight: A "corrective make-up" program for microarray chips

The package is used to detect extended, diffuse and compact blemishes on microarray chips. Harshlight automatically marks the areas in a collection of chips (affybatch objects) and a corrected AffyBatch object is returned, in which the defected areas are substituted with NAs or the median of the values of the same probe in the other chips in the collection. The new version handle the substitute value as whole matrix to solve the memory problem.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("Harshlight")
AuthorMayte Suarez-Farinas, Maurizio Pellegrino, Knut M. Wittkowski, Marcelo O. Magnasco
Bioconductor views Microarray OneChannel Preprocessing QualityControl ReportWriting
Date of publicationNone
MaintainerMaurizio Pellegrino <mpellegri@berkeley.edu>
LicenseGPL (>= 2)
Version1.46.0
http://asterion.rockefeller.edu/Harshlight/

View on Bioconductor

Files

DESCRIPTION
NAMESPACE
R
R/Harshlight.R
build
build/vignette.rds
data
data/sim.int.rda
data/sim.rda
inst
inst/doc
inst/doc/Harshlight.R
inst/doc/Harshlight.Rnw
inst/doc/Harshlight.pdf
man
man/HarshComp.Rd man/HarshExt.Rd man/Harshlight.Rd man/sim.Rd
src
src/Harshlight.c
vignettes
vignettes/Harshlight.Rnw

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

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