preprocessCore: A collection of pre-processing functions

A library of core preprocessing routines

Author
Benjamin Milo Bolstad <bmb@bmbolstad.com>
Date of publication
None
Maintainer
Benjamin Milo Bolstad <bmb@bmbolstad.com>
License
LGPL (>= 2)
Version
1.36.0
URLs

View on Bioconductor

Man pages

colSummarize
Summarize the column of matrices
normalize.quantiles
Quantile Normalization
normalize.quantiles.in.blocks
Quantile Normalization carried out separately within blocks...
normalize.quantiles.robust
Robust Quantile Normalization
normalize.quantiles.target
Quantile Normalization using a specified target distribution...
rcModelPLMd
Fit robust row-column models to a matrix
rcModelPLMr
Fit robust row-column models to a matrix
rcModels
Fit row-column model to a matrix
rma.background.correct
RMA Background Correction
subColSummarize
Summarize columns when divided into groups of rows
subrcModels
Fit row-column model to a matrix

Files in this package

preprocessCore/CHANGELOG
preprocessCore/DESCRIPTION
preprocessCore/NAMESPACE
preprocessCore/R
preprocessCore/R/colSummarize.R
preprocessCore/R/normalize.quantiles.R
preprocessCore/R/plmd.R
preprocessCore/R/plmr.R
preprocessCore/R/quantile_extensions.R
preprocessCore/R/rcModel.R
preprocessCore/R/rma.background.correct.R
preprocessCore/R/subColSummarize.R
preprocessCore/configure
preprocessCore/configure.in
preprocessCore/inst
preprocessCore/inst/include
preprocessCore/inst/include/R_subColSummarize.h
preprocessCore/inst/include/R_subColSummarize_stubs.c
preprocessCore/inst/include/avg.h
preprocessCore/inst/include/avg_log.h
preprocessCore/inst/include/biweight.h
preprocessCore/inst/include/lm.h
preprocessCore/inst/include/log_avg.h
preprocessCore/inst/include/log_median.h
preprocessCore/inst/include/median.h
preprocessCore/inst/include/median_log.h
preprocessCore/inst/include/medianpolish.h
preprocessCore/inst/include/plmd.h
preprocessCore/inst/include/plmr.h
preprocessCore/inst/include/preprocessCore_background_stubs.c
preprocessCore/inst/include/preprocessCore_background_stubs.h
preprocessCore/inst/include/preprocessCore_normalization_stubs.c
preprocessCore/inst/include/preprocessCore_normalization_stubs.h
preprocessCore/inst/include/preprocessCore_summarization_stubs.c
preprocessCore/inst/include/preprocessCore_summarization_stubs.h
preprocessCore/inst/include/qnorm.h
preprocessCore/inst/include/rlm.h
preprocessCore/inst/include/rlm_se.h
preprocessCore/inst/include/rma_background4.h
preprocessCore/inst/include/weightedkerneldensity_stubs.c
preprocessCore/inst/include/weightedkerneldensity_stubs.h
preprocessCore/man
preprocessCore/man/colSummarize.Rd
preprocessCore/man/normalize.quantiles.Rd
preprocessCore/man/normalize.quantiles.in.blocks.Rd
preprocessCore/man/normalize.quantiles.robust.Rd
preprocessCore/man/normalize.quantiles.target.Rd
preprocessCore/man/rcModelPLMd.Rd
preprocessCore/man/rcModelPLMr.Rd
preprocessCore/man/rcModels.Rd
preprocessCore/man/rma.background.correct.Rd
preprocessCore/man/subColSummarize.Rd
preprocessCore/man/subrcModels.Rd
preprocessCore/src
preprocessCore/src/Makevars
preprocessCore/src/Makevars.in
preprocessCore/src/Makevars.win
preprocessCore/src/R_colSummarize.c
preprocessCore/src/R_colSummarize.h
preprocessCore/src/R_plmd_interfaces.c
preprocessCore/src/R_plmr_interfaces.c
preprocessCore/src/R_plmr_interfaces.h
preprocessCore/src/R_rlm_interfaces.c
preprocessCore/src/R_rlm_interfaces.h
preprocessCore/src/R_subColSummarize.c
preprocessCore/src/R_subColSummarize.h
preprocessCore/src/R_subrcModel_interfaces.c
preprocessCore/src/avg.c
preprocessCore/src/avg.h
preprocessCore/src/avg_log.c
preprocessCore/src/avg_log.h
preprocessCore/src/biweight.c
preprocessCore/src/biweight.h
preprocessCore/src/dqrls.h
preprocessCore/src/init_package.c
preprocessCore/src/lm.c
preprocessCore/src/lm.h
preprocessCore/src/log_avg.c
preprocessCore/src/log_avg.h
preprocessCore/src/log_median.c
preprocessCore/src/log_median.h
preprocessCore/src/matrix_functions.c
preprocessCore/src/matrix_functions.h
preprocessCore/src/median.c
preprocessCore/src/median.h
preprocessCore/src/median_log.c
preprocessCore/src/median_log.h
preprocessCore/src/medianpolish.c
preprocessCore/src/medianpolish.h
preprocessCore/src/plmd.c
preprocessCore/src/plmd.h
preprocessCore/src/plmr.c
preprocessCore/src/plmr.h
preprocessCore/src/psi_fns.c
preprocessCore/src/psi_fns.h
preprocessCore/src/qnorm.c
preprocessCore/src/qnorm.h
preprocessCore/src/rlm.c
preprocessCore/src/rlm.h
preprocessCore/src/rlm_anova.c
preprocessCore/src/rlm_se.c
preprocessCore/src/rlm_se.h
preprocessCore/src/rma_background4.c
preprocessCore/src/rma_background4.h
preprocessCore/src/rma_common.c
preprocessCore/src/rma_common.h
preprocessCore/src/weightedkerneldensity.c
preprocessCore/src/weightedkerneldensity.h
preprocessCore/tests
preprocessCore/tests/PLMdtest.R
preprocessCore/tests/qnormtest.R