Typically, tumor samples contain normal cells to a certain extent. Some programs that deal with somatic mutations take tumor purity percentage as an input, e.g. ExomeCNV, VarScan, etc.
I noticed that ExomeCNV's LOH calling algorithm supposedly can be used to estimate the % contaminated by normal cells. But it is not well documented in their User Guide. Can anyone show me how to do this?
Or are there other programs that can estimate tumor purity?
Thanks in advance.
I noticed that ExomeCNV's LOH calling algorithm supposedly can be used to estimate the % contaminated by normal cells. But it is not well documented in their User Guide. Can anyone show me how to do this?
Or are there other programs that can estimate tumor purity?
Thanks in advance.
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