William R. Shoemaker

William R. Shoemaker

Postdoc in the Quantitative Ecology and Evolution group at the The Abdus Salam International Centre for Theoretical Physics (ICTP)

Posts by Tags

artifact

Necessary considerations when estimating linkage disequilibrium at different allele frequencies

Recently, I have been going through old notes I never published. I’m going to try and post a few as blogs over the next few months. The background here is that in 2021 I was examining linkage disequilibrium (LD) for nonsynonymous and synonymous sites in microbial species using Human Microbiome Project metagenomic data. It soon became clear that one must carefully choose how LD is estimated. Below are some basic simulation results from 2021, unedited, with a minor addendum.

ecology

evolution

Necessary considerations when estimating linkage disequilibrium at different allele frequencies

Recently, I have been going through old notes I never published. I’m going to try and post a few as blogs over the next few months. The background here is that in 2021 I was examining linkage disequilibrium (LD) for nonsynonymous and synonymous sites in microbial species using Human Microbiome Project metagenomic data. It soon became clear that one must carefully choose how LD is estimated. Below are some basic simulation results from 2021, unedited, with a minor addendum.

math

Necessary considerations when estimating linkage disequilibrium at different allele frequencies

Recently, I have been going through old notes I never published. I’m going to try and post a few as blogs over the next few months. The background here is that in 2021 I was examining linkage disequilibrium (LD) for nonsynonymous and synonymous sites in microbial species using Human Microbiome Project metagenomic data. It soon became clear that one must carefully choose how LD is estimated. Below are some basic simulation results from 2021, unedited, with a minor addendum.

notes

Necessary considerations when estimating linkage disequilibrium at different allele frequencies

Recently, I have been going through old notes I never published. I’m going to try and post a few as blogs over the next few months. The background here is that in 2021 I was examining linkage disequilibrium (LD) for nonsynonymous and synonymous sites in microbial species using Human Microbiome Project metagenomic data. It soon became clear that one must carefully choose how LD is estimated. Below are some basic simulation results from 2021, unedited, with a minor addendum.