Last data update: 2014.03.03
|
maigesPack
Package: maigesPack
Version: 1.36.0
Title: Functions to handle cDNA microarray data, including several
methods of data analysis
Author: Gustavo H. Esteves <gesteves@gmail.com>, with contributions
from Roberto Hirata Jr <hirata@ime.usp.br>, E. Jordao Neves
<neves@ime.usp.br>, Elier B. Cristo <elier@ime.usp.br>, Ana C.
Simoes <anakqui@ime.usp.br> and Lucas Fahham
<fahham@linux.ime.usp.br>
Maintainer: Gustavo H. Esteves <gesteves@gmail.com>
Depends: R (>= 2.10), convert, graph, limma, marray, methods
Suggests: amap, annotate, class, e1071, MASS, multtest, OLIN, R2HTML,
rgl, som
Description: This package uses functions of various other packages
together with other functions in a coordinated way to handle
and analyse cDNA microarray data
License: GPL (>= 2)
LazyLoad: yes
Collate: AllClasses.R AllGenerics.R print-methods.R summary-methods.R
show-methods.R dim-methods.R indexing-methods.R
coerce-methods.R plot-methods.R image-methods.R
boxplot-methods.R calcA-methods.R calcW-methods.R
getLabels-methods.R activeMod.R activeModScoreHTML.R
activeNet.R activeNetScoreHTML.R addGeneGrps.R addPaths.R
bootstrapCor.R bootstrapMI.R bootstrapT.R classifyKNN.R
classifyKNNsc.R classifyLDA.R classifyLDAsc.R classifySVM.R
classifySVMsc.R colors.R compCorr.R contrastsFitM.R
createMaigesRaw.R createTDMS.R deGenes2by2BootT.R
deGenes2by2Ttest.R deGenes2by2Wilcox.R deGenesANOVA.R
designANOVA.R heatmapsM.R hierMde.R hierM.R kmeansMde.R
kmeansM.R loadData.R MI.R normLoc.R normOLIN.R normRepLoess.R
normScaleLimma.R normScaleMarray.R plotGenePair.R relNet2TGF.R
relNetworkB.R relNetworkM.R robustCorr.R selSpots.R somMde.R
somM.R summarizeReplicates.R tableClass.R tablesDE.R
URL: http://www.maiges.org/en/software/
biocViews: Microarray, TwoChannel, Preprocessing, ThirdPartyClient,
DifferentialExpression, Clustering, Classification,
GraphAndNetwork
NeedsCompilation: yes
Packaged: 2016-05-04 03:03:43 UTC; biocbuild
● BiocViews: Classification, Clustering, DifferentialExpression, GraphAndNetwork, Microarray, Preprocessing, ThirdPartyClient, TwoChannel
●
47 images,
70 functions,
1 datasets
●
Reverse Depends: 0
Install log
* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'maigesPack' ...
** libs
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c Minfo.c -o Minfo.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c bootstrapT.c -o bootstrapT.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c register.c -o register.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c robustCorr.c -o robustCorr.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -c stats.c -o stats.o
gcc -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o maigesPack.so Minfo.o bootstrapT.o register.o robustCorr.o stats.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/maigesPack/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'maigesPack'
finding HTML links ... done
MI html
activeMod html
activeModScoreHTML html
activeNet html
activeNetScoreHTML html
addGeneGrps html
addPaths html
bootstrapCor html
bootstrapMI html
bootstrapT html
boxplot-methods html
bracketMethods html
calcA html
calcW html
classifyKNN html
classifyKNNsc html
classifyLDA html
classifyLDAsc html
classifySVM html
classifySVMsc html
coerce-methods html
compCorr html
contrastsFitM html
createMaigesRaw html
createTDMS html
deGenes2by2BootT html
deGenes2by2Ttest html
deGenes2by2Wilcox html
deGenesANOVA html
designANOVA html
dim-methods html
gastro html
getLabels html
heatmapsM html
hierM html
hierMde html
image-methods html
kmeansM html
kmeansMde html
loadData html
maiges-class html
maigesANOVA-class html
maigesActMod-class html
maigesActNet-class html
maigesClass-class html
maigesDE-class html
maigesDEcluster-class html
maigesPreRaw-class html
maigesRaw-class html
maigesRelNetB-class html
maigesRelNetM-class html
normLoc html
normOLIN html
normRepLoess html
normScaleLimma html
normScaleMarray html
plot-methods html
plotGenePair html
print-methods html
relNet2TGF html
relNetworkB html
relNetworkM html
robustCorr html
selSpots html
show-methods html
somM html
somMde html
summarizeReplicates html
summary-methods html
tableClass html
tablesDE html
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (maigesPack)
Making 'packages.html' ... done
|