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academic_cv

annotationissues

arabidopsisduplicationanalysis

This repository contains the code to run PicMin on the genome scans performed to identify loci that exhibit patterns consistant with adaptation to whole genome duplication

assisted-gene-flow

Code for summarising Remi's SimBit simualtions for the Whitlock lab's projet on assissted gene flow

bgs_recombinationrateevolution

castaneus_recombination_and_phasing

The repo that has all the scripts that prepared and analysed the data from ShapeIt2 and LDhelmet

chinook

A set of scripts and simulations to generate datasets for the UBC bioinformatics workshop

codecampdata

A repository for storing data for the codecamp

demography_bgs

a set of scripts that allow one to extract the site frequency spectrum from a bunch of SLiM output iles

dgconstraint

Scripts for calculating metrics of constraint driving repeatability of adaptation

estimate_selection_from_troughs

In this project I'm developing a method to estiamte the parameters of selection from the patterns of diversity around exons and CNEs

estimate_simulation_from_troughs

Exploring methods to estiamte selection from the shapes of troughs

globaladaptation

This repository contains all the scripts and config files for performing the analyses in our preprint: "Global adaptation confounds the search for local adaptation"

identifyannotationissues

localadaptationarchitechture

m.m.castaneus_recombination-maps

A repository containing the recombination maps for M. m. castnaeus constructed using LDhelmet

mike_bgs

Simulation and analysis code for Mike Whitlock's BGS project

moi_mutation_area

mpl_finance

muridrodentproject

This repo contains the scripts that I'm using for the current murid rodent project as well as scripts to perform the simulations from our 2018 MBE paper (Booker and Keightley)

muridrodenttroughs

mutacc_sfs_dfe

mutationareaslimulations

old_personal_website

:sparkles: Build a beautiful and simple website in literally minutes. Demo at http://deanattali.com/beautiful-jekyll

picmin

positiveselection_usfs

A repo containing the simulation configuration and analysis files for analysing positive selection using the uSFS

recombination_fst

A repository containing the scripts and analysis results behind the manuscript "Variation in recombination affects detection of Fst outliers under neutrality"

recombination_simulations

set of scripts to process simulations to be used for assessing whether LDhelmet will accurately infer recombination rates from our population samples

simstudy

tbooker.github.io

Allan Lab website