Question: ERROR in loading data through rma
0
gravatar for muhammadzubair777
4.4 years ago by
muhammadzubair77710 wrote:

i am facing problem in loading data through rma in R. when i have run the command

rmaData = rma(gse28403preset)

it is giving following error!

Error in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function ‘rma’ for signature ‘"AffyBatch"’

code is here:

celFiles<- unlist(list.files("GSE28403",pattern="\\.CEL.gz",full.names=TRUE))

gse28403preset=ReadAffy(filenames=celFiles)

rmaData = rma(gse28403preset)

Error in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function ‘rma’ for signature ‘"AffyBatch"’

can anyone give me any suggestion to solve this problem?

R • 3.4k views
ADD COMMENTlink modified 2.5 years ago by zx87549.7k • written 4.4 years ago by muhammadzubair77710
8
gravatar for Ar
4.4 years ago by
Ar990
United States
Ar990 wrote:

You error suggests that apart from affy R package there is another package in your workspace where rma function is defined. The command objects in these packages are also different. Therefore, R can't identify which rma function you are trying to use leading to this error. Another package where rma function is defined is oligo Try using:

> rma.data <- affy::rma(gse28403preset)

You should get:

Background correcting
Normalizing
Calculating Expression
ADD COMMENTlink modified 4.4 years ago • written 4.4 years ago by Ar990
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1227 users visited in the last hour