Compare segment data produced by CopywriteR and similar tools
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6 months ago
Ram 34k

Hello,

My understanding of CN calling tools is that they produce a file with segments and a CN value for these segments. However, the actual number of segments as well the location of these segments vary from sample to sample (they could vary from run to run for the same sample too, I haven't tested that)

CopywriteR generates a segment.Rdata file with the following structure:

ID    chrom    loc.start    loc.end    num.mark    seg.mean


There are a variable number of records generated for each sample, and the chrom - loc.start - loc.end combinations are unique as well. Given that the above happens, is there any way I can compare the outputs generated for two different samples?

copywriter cna • 167 views