source("http://bioconductor.org/biocLite.R")
Bioconductor version 2.14 (BiocInstaller 1.14.2), ?biocLite for help
> biocLite("AnnotationDbi")
BioC_mirror: http://bioconductor.org
Using Bioconductor version 2.14 (BiocInstaller 1.14.2), R version
3.1.0.
Installing package(s) 'AnnotationDbi'
试开URL’http://bioconductor.org/packages/2.14/bioc/bin/windows/contrib/3.1/AnnotationDbi_1.26.0.zip'
Content type 'application/zip' length 9472500 bytes (9.0 Mb)
打开了URL
downloaded 9.0 Mb
package ‘AnnotationDbi’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\Huang Wei\AppData\Local\Temp\Rtmpwnp6wX\downloaded_packages
警告信息：
installed directory not writable, cannot update packages 'MASS',
'Matrix'
> biocLite("pd.hg.u133.plus.2")
BioC_mirror: http://bioconductor.org
Using Bioconductor version 2.14 (BiocInstaller 1.14.2), R version
3.1.0.
Installing package(s) 'pd.hg.u133.plus.2'
试开URL’http://bioconductor.org/packages/2.14/data/annotation/bin/windows/contrib/3.1/pd.hg.u133.plus.2_1.10.0.zip'
Content type 'application/zip' length 24778585 bytes (23.6 Mb)
打开了URL
downloaded 23.6 Mb
The downloaded binary packages are in
C:\Users\Huang Wei\AppData\Local\Temp\Rtmpwnp6wX\downloaded_packages
警告信息：
installed directory not writable, cannot update packages 'MASS',
'Matrix'
> library(AnnotationDbi)
载入需要的程辑包：BiocGenerics
载入需要的程辑包：parallel
载入程辑包：‘BiocGenerics’
下列对象被屏蔽了from ‘package:parallel’:
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
下列对象被屏蔽了from ‘package:stats’:
xtabs
下列对象被屏蔽了from ‘package:base’:
anyDuplicated, append, as.data.frame, as.vector, cbind,
colnames, do.call, duplicated, eval, evalq, Filter, Find, get,
intersect, is.unsorted, lapply, Map, mapply, match, mget, order,
paste, pmax, pmax.int, pmin, pmin.int, Position, rank, rbind,
Reduce, rep.int, rownames, sapply, setdiff, sort, table, tapply,
union, unique, unlist
载入需要的程辑包：Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
载入需要的程辑包：GenomeInfoDb
> library(pd.hg.u133.plus.2)
载入需要的程辑包：RSQLite
载入需要的程辑包：DBI
载入需要的程辑包：oligoClasses
Welcome to oligoClasses version 1.26.0
载入需要的程辑包：oligo
载入需要的程辑包：Biostrings
载入需要的程辑包：IRanges
载入需要的程辑包：XVector
=============================================================================
Welcome to oligo version 1.28.2
=============================================================================
载入程辑包：‘oligo’
下列对象被屏蔽了from ‘package:BiocGenerics’:
normalize
> my <-read.table("D:\\data\\shiyan\\TB\\tbtxt.txt", sep="\t", head=T)
> k <- my$Scan.REF
> out<-select(pd.hg.u133.plus.2,keys=k,cols=c("SYMBOL","GENENAME"),keytype="PROBEID")
错误于(function (classes, fdef, mtable) :
unable to find an inherited method for function ‘select’ for signature ‘"AffyExpressionPDInfo"’
