Pinned Repositories
coalesceR
A native R simulator for the discrete coalescent
colordict
an R script for generating color combinations from Senzo Wada's "A Dictionary of Color Combinations"
driftR
population genetic simulations with R and Shiny
ldsim
An R/shiny simulation app for teaching linkage disequilibrium
LinckBattey2017_MAF_clustering
R scripts used in "Minor allele frequency thresholds strongly affect population structure inference with genomic datasets" (Linck & Battey 2017, doi: https://doi.org/10.1101/188623)
locator
Locator-- deep learning prediction of geographic location from individual genome sequences
nicheTrackR
Do migrant hummingbirds track a climatic niche through the seasons?
popSim
population genetic simulations inspired by popG (http://evolution.gs.washington.edu/popgen/popg.html)
RADplots
Functions for plotting data generated by RAD sequencing - mostly dealing with the output from pyRAD
spacetree
tools for visualizing spatial genealogies
cjbattey's Repositories
cjbattey/driftR
population genetic simulations with R and Shiny
cjbattey/colordict
an R script for generating color combinations from Senzo Wada's "A Dictionary of Color Combinations"
cjbattey/LinckBattey2017_MAF_clustering
R scripts used in "Minor allele frequency thresholds strongly affect population structure inference with genomic datasets" (Linck & Battey 2017, doi: https://doi.org/10.1101/188623)
cjbattey/ldsim
An R/shiny simulation app for teaching linkage disequilibrium
cjbattey/popSim
population genetic simulations inspired by popG (http://evolution.gs.washington.edu/popgen/popg.html)
cjbattey/RADplots
Functions for plotting data generated by RAD sequencing - mostly dealing with the output from pyRAD
cjbattey/spacetree
tools for visualizing spatial genealogies
cjbattey/coalesceR
A native R simulator for the discrete coalescent
cjbattey/locator
Locator-- deep learning prediction of geographic location from individual genome sequences
cjbattey/popvae_analysis_scripts
scripts used for analyses and plotting described in the popvae manuscript
cjbattey/halibut
ML classification of introgressed genomic regions using unphased genotypes (F1 from https://github.com/kern-lab/FILET)
cjbattey/structure_parallel
R script to run multiple Structure analyses in parallel.
cjbattey/structurePlotter
a shiny site for plotting output from popgen Bayesian clustering software (STRUCTURE/Admixture/etc)
cjbattey/white_house_salaries
analyzing white house salary data
cjbattey/adaptR
An R app for wright-fisher simulations with time-variant genotype fitness
cjbattey/analysis
Analysis of inference methods on standard population models
cjbattey/anhu
demographic and climate niche analysis of range expansions in the Anna's Hummingbird
cjbattey/anolis
cjbattey/anolis_elevation_shift
scripts for analysis of elevation range shifts in Puerto Rican Anolis lizards
cjbattey/biol610
intro to programming for IE2 evolution students
cjbattey/ggforce
Accelerating ggplot2
cjbattey/migration_mapper
Making sweet gifs from eBird data
cjbattey/NBP
Seattle Audubon Society Neighborhood Bird Project
cjbattey/pdf2pdf
does the magical pdf-to-pdf conversion popular in academic journal submission sites
cjbattey/pyslim
Tools for dealing with tree sequences coming to and from SLiM.
cjbattey/selasphorus_evolution
cjbattey/STACKS_scripts
R and shell scripts for dealing with STACKS assemblies
cjbattey/truseq_assembly
pipeline for filtering and calling SNP's from illumina truseq libraries given an existing reference genome
cjbattey/UW_FISH340_fall2016
cjbattey/vcf2dadi
an R function to convert a vcf to dadi's input format (and maybe hzar)