Coverage of methylated Cs

Question

[ahsan.raza.rana]

I have Bisulfite sequence files.I have mapped them using bismark and the resultant bedGraph file shows the chr, start, end, percent methylationl. Foe each location /Entry/methylated C ,I need total coverage.I dont know how to get the total coverage. I also generated a file by command coverage2cytosine but the output was chr , position, strand, count of methylated,count of unmethylated Can I calculate the coverage by adding count of methylated and unmethylated . If I am right please let me know. Seeking for immediate help.

Answer 1

[igor]

If you are running coverage2cytosine, you are giving it coverage report. The coverage report has the coverage.