library(Category)
ls(2)
?list
library(cellHTS2)
?normalizePlates
?writeReport
?summarizeChannels
library(cellHTS2)
?cellHTS-class
class?cellHTS
help.start()
vignette(package="cellTHS2")
vignette(package="cellHTS2")
vignette("cellhts2Complete",package="cellHTS2")
vignette("cellhts2",package="cellHTS2")
?normalizePlates
?boxplot
class?cellHTS
?writeReport
help.start()
biocLite("RpsiXML")
library("RpsiXML")
ls(2)
?interactionType
library(limma)
update.packages()
library(GOstats)
?hyperG
ls(2)
library(Category)
ls(2)
search()
ls(6)
?hyperGtest
?hyperGTest
6000^2
apropos(whitney)
apropos(Mann)
apropos("Mann")
apropos("Whitney")
apropos("whitney")
library(stats)
ls(2)
search
search()
ls(3)
?wilcox.test
x <- c(2.9, 3.0, 2.5, 2.6, 3.2) # normal subjects#
y <- c(3.8, 2.7, 4.0, 2.4)      # with obstructive airway disease#
z <- c(2.8, 3.4, 3.7, 2.2, 2.0) # with asbestosis
x <- c(x, y, z)#
g <- factor(rep(1:3, c(5, 4, 5)),#
            labels = c("Normal subjects",#
                       "Subjects with obstructive airway disease",#
                       "Subjects with asbestosis"))#
kruskal.test(x, g)
?phyper
library(limma)
ls(2)
?ebayes
library(multest)
biocLite(multest)
biocLite("multest)
cc
biocLite("multest")
library(multtest)
ls(2)
?mt.teststat
ls(5)
search()
ls(6)
?fisher
?fisher.test
?t.test
library(GOstats)
?hyperG2Affy
ls(2)
library(category)
library(Category)
ls(2)
search
search()
ls(6)
?hyperGtest
?hyperGTest
q()
n
80*30
9/14
5/14
8/14
6/14
library(lattice)
data(Indometh)
df <- Indometh
head(df)
myplot <- xyplot(conc ~ time, data = df, xlab = "Time (hours)", ylab = "Concentration (mcg/ml)", main = "Pharmacokinetics of Indomethicin")
myplot
library(GOStats)
library(GOstats)
ls(2)
search()
ls(6)
?htmlReport
apropos("KEGG")
?getKEGGFrameData
library(GSEABase)
ls(2)
vignette(package="GSEABase")
vignette("GSEABase")
library(KEGGgraph)
biocLite("KEGGgraph")
library(KEGGgraph)
ls(2)
vignette(package="KEGGgraph")
vignette("KEGGgraph")
library(cluster)
ls(2)
setwd("Projets/02_Hutch/Books/Springer/BMnetworkBook/")
setwd("NLM-RG-contribution/")
libreary(weaver)
library(weaver)
Sweave("NLeMeur_MiMB_MBN_2009_method.Rnw")
library(weaver)
Sweave("/Users/nlemeur/Projets/02_Hutch/Books/Springer/BMnetworkBook/NLM-RG-contribution/NLeMeur_MiMB_MBN_2009_method.Rnw")
Sweave("/Users/nlemeur/Projets/02_Hutch/Books/Springer/BMnetworkBook/NLM-RG-contribution/NLeMeur_MiMB_MBN_2009_method.Rnw")
Sweave("/Users/nlemeur/Projets/02_Hutch/Books/Springer/BMnetworkBook/NLM-RG-contribution/NLeMeur_MiMB_MBN_2009_method.Rnw")
Sweave("/Users/nlemeur/Projets/02_Hutch/Books/Springer/BMnetworkBook/NLM-RG-contribution/NLeMeur_MiMB_MBN_2009_method.Rnw")
sessionIndo()
sessionInfo()
Sweave("/Users/nlemeur/Projets/02_Hutch/Books/Springer/BMnetworkBook/NLM-RG-contribution/NLeMeur_MiMB_MBN_2009_method.Rnw")
sessionInfo()
q()
n
sessionInfo()
sessionInfo()
Sys.getlocale()

l10n_info()

Sys.setlocale(category = "LC_ALL", locale ="en_US.UTF-8")
sessionInfo()
Sweave("/Users/nlemeur/Projets/02_Hutch/Books/Springer/BMnetworkBook/NLM-RG-contribution/NLeMeur_MiMB_MBN_2009_method.Rnw")
str(aDe)
str(aDE)
str(bES)
bES
str(bES)
str(featureNames(bES))
?topTable
q()
n
