On Dec 6, 2010, at 11:28 , Petr PIKAL wrote:
> Hi
>
> r-help-boun...@r-project.org napsal dne 06.12.2010 11:02:03:
>
>>
>> Hi,
>>
>> I am trying to calculate correlation coefficient for gene expression
> data.
>>
>> Tab delimited file looks like this
>>
>> Id v1 v2 v3
>> df 56 90 45
>> gh 87 98 78
>> ty 89 78 67
>>
>> I used this code
>>
>>
>> [code]
>>
>> gse20437 <- read.csv("C:/Users//Desktop/data/GSE20437_matrix.txt",header
> =
>> TRUE, sep = ",", strip.white = TRUE)
>>
>> gsecor <- cor(gse20437, method ="pearson") or
>>
>> gsecor <- cor(gse20437)
>>
>> [/code]
>>
>> i get error x must be numeric..
>>
>> can anybody help me.
>
> At least your Id column is not numeric. Do not use it for cor.
>
> gsecor <- cor(gse20437[,-1])
Also, using sep="," for a TAB delimited file is suspect (to say the least).
(Note, by the way read.delim())
--
Peter Dalgaard
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Email: pd....@cbs.dk Priv: pda...@gmail.com
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