Question: How to generate a smoothing plot for Fst along the genome from Lositan output?
0
gravatar for Anurag
4.9 years ago by
Anurag20
Belgium
Anurag20 wrote:

Hi All,

I want to make a genome wide Fst plot using the Lositan output along with P-Values calculated by lositan.

Any inputs will be appreciated.

Thanks

lositan snp fst • 2.3k views
ADD COMMENTlink modified 4.7 years ago by Zev.Kronenberg11k • written 4.9 years ago by Anurag20
0
gravatar for Zev.Kronenberg
4.7 years ago by
United States
Zev.Kronenberg11k wrote:

I don't know how to do it from Lositan, but I have all the details how to do it using my code:

https://github.com/jewmanchue/vcflib/wiki

Check out the library, run wcFst:

https://github.com/jewmanchue/vcflib/wiki/Association-testing-with-GPAT

smooth it:

https://github.com/jewmanchue/vcflib/wiki/Smoothing-with-GPAT

ADD COMMENTlink written 4.7 years ago by Zev.Kronenberg11k
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