LVSmiRNA: LVS normalization for Agilent miRNA data
Version 1.26.1

Normalization of Agilent miRNA arrays.

Browse man pages Browse package API and functions Browse package files

AuthorStefano Calza, Suo Chen, Yudi Pawitan
Bioconductor views AgilentChip Microarray OneChannel Preprocessing
Date of publicationNone
MaintainerStefano Calza <stefano.calza@unibs.it>
LicenseGPL-2
Version1.26.1
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("LVSmiRNA")

Man pages

boxplot-methods: Methods for Function boxplot
estVC: Robust Linear Model to Estimate Residual Variance and Array...
exprs_assign-methods: ~~ Methods for Function exprs<- in Package 'Biobase' ~~
exprs-methods: Methods for Function exprs
featureNames-method: Methods for Function featureNames
lvs: Least Variant Set selection and Normalization Function(s)
MIR-spike-in: Data example
plotRA: Plot of Residual Variance and Array Effect
preproc_assign-methods: Methods for Function preproc
preproc-methods: Methods for Function preproc
probeNames-methods: Methods for Function probeNames
read.mir: Read in miRNA Data from Agilent Feature Extractiion Output...
RLM: Robust Fitting of Linear Models
rlmFit: Fitter Functions for Robust Linear Models
sampleNames-methods: Methods for Function sampleNames
summarize: LVSmiRNA Summarization Function(s) for microRNA Microarray

Functions

MIR Man page
MIR-spike-in Man page
MIR.RA Man page
MIR_RA Man page
RLM Man page Source code
boxplot,EList-method Man page
boxplot,RGList-method Man page
boxplot-methods Man page
estVC Man page Source code
estVC.EList Man page Source code
estVC.RGList Man page
exprs,EList-method Man page
exprs,RGList-method Man page
exprs-methods Man page
exprs<-,AffyBatch,ANY-method Man page
exprs<-,EList,ANY-method Man page
exprs<-,ExpressionSet,matrix-method Man page
exprs<-,RGList,ANY-method Man page
exprs<-,SnpSet,matrix-method Man page
exprs<--methods Man page
fapply Source code
featureNames,EList-method Man page
featureNames,RGList-method Man page
featureNames-methods Man page
lvs Man page Source code
lvs.EList Man page Source code
lvs.RGList Man page
medpolish2 Source code
normalize.lvs Man page Source code
onLoad Source code
onUnload Source code
plot,RA,ANY-method Man page
plot-method Man page
preproc,EList-method Man page
preproc,RGList-method Man page
preproc-methods Man page
preproc<-,EList-method Man page
preproc<-,RGList-method Man page
preproc<--methods Man page
probeNames,EList-method Man page
probeNames,RGList-method Man page
probeNames-methods Man page
reShapeMed Source code
read.mir Man page Source code
rlmFit Man page Source code
sampleNames,EList-method Man page
sampleNames,RGList-method Man page
sampleNames-methods Man page
summarize Man page Source code
summarize.EList Man page Source code
summarize.RGList Man page Source code

Files

DESCRIPTION
NAMESPACE
R
R/AllGenerics.R
R/RLM.R
R/estVC.R
R/normalize.R
R/readMIR.R
R/summarize.R
R/utils.R
R/zzz.R
build
build/vignette.rds
data
data/MIR-spike-in.rda
data/MIR_RA.rda
inst
inst/NEWS
inst/doc
inst/doc/LVSmiRNA.R
inst/doc/LVSmiRNA.Rnw
inst/doc/LVSmiRNA.pdf
inst/extdata
inst/extdata/Comparison_Array.txt
man
man/MIR-spike-in.Rd
man/RLM.Rd
man/boxplot-methods.Rd
man/estVC.Rd
man/exprs-methods.Rd
man/exprs_assign-methods.Rd
man/featureNames-method.Rd
man/lvs.Rd
man/plotRA.Rd
man/preproc-methods.Rd
man/preproc_assign-methods.Rd
man/probeNames-methods.Rd
man/read.mir.Rd
man/rlmFit.Rd
man/sampleNames-methods.Rd
man/summarize.Rd
src
src/Makevars
src/Makevars.win
src/Rlapack.h
src/basic_fns.c
src/basic_fns.h
src/init.c
src/lvs_rlm.c
vignettes
vignettes/LVSmiRNA.Rnw
vignettes/LVSmiRNA.bib
LVSmiRNA documentation built on May 20, 2017, 10:34 p.m.