Huge Number Of Mendel Errors In Plink
Hello,
I have raw gene reports from Illumina 1M platform ("final report.txt") that I converted to .map and .lgen formats for PLINK. Upon filtering for Mendel errors (--me 1 0.05), almost 87% of my markers are being removed. Is it because my gene reports contain cnv information too? Or is it because of something else I'm missing?
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srijani.sridhar •
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alright, thank you! also, does the MAP file have to contain only snps? is it okay for it to have cnvs too?
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http://en.wikipedia.org/wiki/Parental_testing :-)
This does tend to come out during consent, but sometimes the parent must think the researchers will just throw away the data when they realize "dad" is not dad.