[R] For help in R coding
vikas.bansal at kcl.ac.uk
Fri Jul 1 18:47:47 CEST 2011
I am doing a project on variant calling using R.I am working on pileup file.There are 10 columns in my data frame and I want to count the number of A,C,G and T in each row for column 9.example of column 9 is given below-
This is a bit confusing for me as these characters are in one column and how can we scan them for each row to print number of A,C,G and T for each row.
Most of the rows have . and , and other symbols but we will ignore them.I just want to run a loop with a counter which will count the number of A,C,G and T for each row and will give output something like this-
A C G T
1 0 1 0
0 0 0 2
0 2 0 0
1 0 0 0
0 0 0 3
This output is for first 5 rows from the example given above.
I am new to R can you please help me.I will be very thankful to you.
Kings College London
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