[BioC] Limma Package to read cDNA data

[Matthew Ritchie]

Hi Joyce,

I'd suggest you leave out the skip argument from read.maimages() as it's
unnecessary.  When you include skip=20, I guess you get an error like

Error in read.table(fullname, skip = skip, header = TRUE, sep = sep, quote
= quote,  :
        formal argument "skip" matched by multiple actual arguments

The function read.maimages() automatically works out how many lines to
skip before it reads in the data.  Best wishes,

Matt Ritchie

> Hi Jim,
> I followed your instruction, it works.
> But,I have another question, since there are 20 lines which I want to
> skip, I  tried to use skip=20 during file process or RG process, neither
> works. Do you  have any suggestions?
> Thank you so much!!
> Joyce
>>===== Original Message From "James MacDonald" <jmacdon at med.umich.edu>
>> ===== You did not have the file in your current directory. To set your
>>directory, you have to use setwd(). What you did was just find the name
>> of a file in a particular directory.
>>
>>Try
>>
>>setwd("D:/BioconductorProject/OScaseAnalysis")
>>file <- list.files(pattern="\\.txt")
>>
>>and then proceed with your analysis.
>>
>>Best,
>>
>>Jim
>>
>>
>>
>>James W. MacDonald
>>Affymetrix and cDNA Microarray Core
>>University of Michigan Cancer Center
>>1500 E. Medical Center Drive
>>7410 CCGC
>>Ann Arbor MI 48109
>>734-647-5623