Urgent Help with R calculation correlation coefficient

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.

thanks in advance




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Hi,

I am trying to calculate correlation coefficient for gene expression 

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.

thanks in advance




-- 
View this message in context: 

R-calculation-correlation-coefficient-tp3074206p3074206.html
Sent from the R help mailing list archive at Nabble.com.

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.

thanks in advance

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..

Hi

r-help-bounces at 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])

If you have a *tab*-delimited file, then why are your using
read.csv??

Try this:
1. read your data with read.table() or read.delim()