Input for methylsig

[Yaseswini]

Hi,

I have a methyl call file with 0-based coordinates . Can methylsig take 0-based coordinates ? something of this nature -- colnames are in the order : chr , start , end , freqC , num of reads supporting C and num of reads supporting T

1 chr1 10636 10636 95 38 2 2 chr1 10617 10617 100 41 0 3 chr1 10638 10638 97.5 39 1 4 chr1 10631 10631 100 41 0 5 chr1 10609 10609 92.5 37 3 6 chr1 10620 10620 97.5 39 1 7 chr1 10497 10497 78.3 112 31

Thanks Yaseswini

[rcavalcante]

Hi Yaseswini,

methylSig uses GenomicRanges under the hood, and all coordinates in GenomicRanges are considered to be 1-based, so please be aware of that.

Thanks, Raymond