When I use DESeq, I don't seem to be able to get the newCountDataSet to work. I get this error:

> cds <- newCountDataSet(mydata,conds)

Error in round(countData) : Non-numeric argument to mathematical function

> head(mydata)

V1 V2 V3

1 zhu1_Ghi#S28631427 8.9990205 10.5918948

2 zhu1_Ghi#S28631527 0.4181748 0.3937552

3 zhu1_Ghi#S28631546 7.4275293 24.3262365

4 zhu1_Ghi#S28631624 11.5885114 9.8558116

5 zhu1_Ghi#S28631691 0.8391944 10.7992493

6 zhu1_Ghi#S28631709 3.8783566 4.2137042

> str(mydata)

'data.frame': 18634 obs. of 3 variables:

$ V1: Factor w/ 18634 levels "zhu1_Ghi#S28631416",..: 2 4 5 6 7 8 9 10 11 12 ...

$ V2: num 8.999 0.418 7.428 11.589 0.839 ...

$ V3: num 10.592 0.394 24.326 9.856 10.799 ...

How can I solve this problem?

> cds <- newCountDataSet(mydata,conds)

Error in round(countData) : Non-numeric argument to mathematical function

> head(mydata)

V1 V2 V3

1 zhu1_Ghi#S28631427 8.9990205 10.5918948

2 zhu1_Ghi#S28631527 0.4181748 0.3937552

3 zhu1_Ghi#S28631546 7.4275293 24.3262365

4 zhu1_Ghi#S28631624 11.5885114 9.8558116

5 zhu1_Ghi#S28631691 0.8391944 10.7992493

6 zhu1_Ghi#S28631709 3.8783566 4.2137042

> str(mydata)

'data.frame': 18634 obs. of 3 variables:

$ V1: Factor w/ 18634 levels "zhu1_Ghi#S28631416",..: 2 4 5 6 7 8 9 10 11 12 ...

$ V2: num 8.999 0.418 7.428 11.589 0.839 ...

$ V3: num 10.592 0.394 24.326 9.856 10.799 ...

How can I solve this problem?

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