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
๐ฒ๐ BART species distribution models ๐ ๐ฒ
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)