Is it possible to give Bedgraph of methylation data as input to Seqmonk?
I do not have .cov or .bam. because the data is from EPIC methylation array. I only have Bedgraph.
I uploaded it as text file but it is not giving me strand separated view and rather like a line as in bed file. When I somehow quantitated no difference is observed in methylation pattern, which I clearly observed by UCSC view. I feel something is wrong in the way I am uploading.
I am also not sure how to design probe in seqmonk. I mean the window size, probe size ,step size for such kind of files.
If anyone have a suggestion or previous experience please help!