Error in y$xd["ESR1", ] : subscript out of bounds

Hello,

I have a dataframe with 1200 samples as columns and 20,000 genes as rownames. I had saved the dataframe into txt file. And using PAM50 for classification. I got the R code from here [https://genome.unc.edu/pubsup/breastGEO/PAM50.zip]

head(df)[1:3]
                  S1       S2       S3
100130426        0.0      0.00    0.9066
100133144     16.3644    9.2659   11.6228
100134869     12.9316    17.3790  9.2294
10357         52.1503    69.7553  154.2974
10431        408.0760    563.8934 1360.8341
136542        0.0000      0.0000   0.0000

After using the R code from PAM50 I got the following error. Can anyone tell me what it means?

Error in y$xd["ESR1", ] : subscript out of bounds

r classification cancer

• 124 views • link

written 9.1 years ago by Vasu

As the entire R code is not available, I would guess there is no column ESR1 in your data frame. Follow this on how to check whether a column exists in your data frame.

• 0 views • link

written 9.1 years ago by venu

0 answers

No answers yet.