Definition of outlier loci in Lositan
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Entering edit mode
8.4 years ago
katrin.heer ▴ 10

For outlier detection in our SNP data we have been using Lositan and have a question
regarding the definition of outlier loci:
In our graphs we find most loci defined as outliers in the area with very low heterozygosity were no envelop is defined (in the default output this area is just a straight line, when we created plots in R we used the output files conf-interv)). Nevertheless, loci in that are said to be outliers - how reliable is this approach and on what grounds are the
outliers defined?

We would be grateful for any suggestions how to deal with this.

Best,

Katrin

lositan • 3.8k views
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1
Entering edit mode
8.4 years ago
tiagoantao ▴ 690

It seems that this result is completely artefactual. That is, it is a problem with the underlying coalescent model. I would not trust LOSITAN on this, at all.

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