Software Programs For Estimating Effective Population Size (Ne) Using Genome-Wide Snp Data
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10.6 years ago
Javier2013 ▴ 90

Hi everyone:

I wanted to know If any of you had any experience using any software program that can give effective population size estimates based on genome-wide SNP data.

Thank you.

Javier

snp population • 5.7k views
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10.6 years ago
jackuser1979 ▴ 890

Try IMPUTE2 tool: It has option to calculate Effective size of the population.

There is also perl script is useful to find theta curve

For finding population mutation & recombination rate use mlRho tool and I think it has option to find effective size population also.

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Hi @jackuser1970 I checked IMPUTE2 tool but I couldn't find an option to estimate Ne. I was trying to estima the population recombination rate using LDhat, but after that which software can I use to estimate Ne ???

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