Seth Musker's repositories
Bergen_target_capture_workshop_April2022
Scripts and results from the target capture workshop held by Martha Kandziora and Seth Musker at the University of Bergen, 26-27 April 2022
Captus
Assembly of Phylogenomic Datasets from High-Throughput Sequencing data
conStruct
method for modeling continuous and discrete population genetic structure
dadi_pipeline
An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting goodness of fit tests, and plotting.
embarcadero
🌲🌉 BART species distribution models 🌉 🌲
GBS_SNP_filter
filtering SNPs based on LD and HWE status
GenoCAE
Convolutional autoencoder for genotype data
HerbChomper_MSA
A bioinformatic tool for trimming poorly-aligned ends from DNA sequences
LSD
This repository contains a suite of scripts for performing LSD genome scans based on explicit demographic models (Luqman et al. 2021; https://www.biorxiv.org/content/10.1101/2020.07.20.211581v2.full.pdf)
SNPs2CF
An R function to compute Concordance Factors from SNP datasets
starmie
starmie: plotting and inference for population structure models :star2:
TargetSupercontigs
Phylogenomics: extract supercontigs from (draft) genome assemblies for more effective target capture sequencing
vcf2conStruct
convert VCF biallelic SNP data to format required for conStruct R package (https://github.com/gbradburd/conStruct)