Hi everybody, I have some CNV data that need to be turned into a chromosomal plot. The format is like this:
chr start end ploidy loss/gain chr1 86000000 117150000 1 loss chr2 70250000 70500000 3 gain chr2 203050000 204650000 3 gain
(The last column can probably be omitted as we have all the info we need in the ploidy column). I would like to visualize them on a chromosomal plot. The only tool I've managed to make work with my data is CNANorm (http://www.bioconductor.org/packages/devel/bioc/vignettes/CNAnorm/inst/doc/CNAnorm.pdf), but it insists on analyzing my already analyzed data, so I can't get the results I need. Here's my CNANorm output, although the data points are all wrong because of the extra analysis.
Any help would be appreciated, please keep in mind that I don't have that much R experience, and that I only need a viewer for the time being. Thanks everyone :)