argument "intgroup" is missing in arrayQualityMetrics
0
0
Entering edit mode
@13117882295-10179
Last seen 8.0 years ago

 

> source("http://bioconductor.org/biocLite.R")

> biocLite("ArrayExpress")

> library("ArrayExpress")

> getwd()

> setwd("D:/test")

> AEset<-ArrayExpress("E-GEOD-470")

> save(AEset, file="AEset.RData")

>load("AEset.rdata")

> class(AEset)

> AEset

> pData(AEset)

> colnames(pData(AEset))

>fac<colnames(pData(AEset))[grep("Factor",colnames(pData(AEset)))] ;

 >fac

  [1] "Factor.Value..DiseaseState."        "Factor.Value..EnvironmentalStress." "Factor.Value..Time."

> library(arrayQualityMetrics)

> arrayQualityMetrics(expressionset=AEset, outdir="QAraw",force=FALSE, do.logtransform=TRUE, intgroup=fac)

The report will be written into directory 'QAraw'. 
Error in match(x, table, nomatch = 0L) : 
  argument "intgroup" is missing, with no default
 
Idon’t know what’s the problem in my steps? And how can i fix it?

 

arrayQualityMetrics • 1.2k views
ADD COMMENT

Login before adding your answer.

Traffic: 603 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6