High positive values in vcftools --het results
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Entering edit mode
11 months ago
nitinra ▴ 40

Hello all,

I am trying to find out the inbreeding coefficients of the individuals in my sample using vcftools --het filter. I am seeing very high positive values (as seen in the figure below). What does very high positive values mean? Is it due to contamination between samples or that my individuals are inbred? The samples are from butterflies from about 10 different sampling locations of close proximity to each other.

enter image description here

wgs snpfilter vcftools gatk • 244 views
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