Question: Definition of outlier loci in Lositan
1
gravatar for katrin.heer
4.8 years ago by
katrin.heer10
Germany
katrin.heer10 wrote:

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 • 2.8k views
ADD COMMENTlink modified 4.8 years ago by tiagoantao660 • written 4.8 years ago by katrin.heer10
1
gravatar for tiagoantao
4.8 years ago by
tiagoantao660
United States of America
tiagoantao660 wrote:

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.

ADD COMMENTlink written 4.8 years ago by tiagoantao660
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 927 users visited in the last hour