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Re: [PATCH] gnu: Add eigensoft.
From: |
Ricardo Wurmus |
Subject: |
Re: [PATCH] gnu: Add eigensoft. |
Date: |
Wed, 13 Jul 2016 08:38:15 +0200 |
User-agent: |
mu4e 0.9.16; emacs 24.5.1 |
Ricardo Wurmus <address@hidden> writes:
> * gnu/packages/bioinformatics.scm (eigensoft): New variable.
[…]
> + (description "This package provides tools for population genetics and
> +stratification correction. The EIGENSTRAT method uses principal components
> +analysis to explicitly model ancestry differences between cases and controls
> +along continuous axes of variation; the resulting correction is specific to a
> +candidate marker’s variation in frequency across ancestral populations,
> +minimizing spurious associations while maximizing power to detect true
> +associations. The EIGENSOFT package has a built-in plotting script and
> +supports multiple file formats and quantitative phenotypes.")
Here’s an alternative description, which is a little more general and
doesn’t emphasise EIGENSTRAT so much:
The EIGENSOFT package provides tools for population genetics and
stratification correction. EIGENSOFT implements methods commonly used
in population genetics analyses such as PCA, computation of
Tracy-Widom statistics, and finding relateds in structured
populations. It comes with a built-in plotting script and supports
multiple file formats and quantitative phenotypes.
WDYT?
~~ Ricardo