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aars_rates

Datasets associated with "Aminoacyl-tRNA synthetase evolution within the dynamic tripartite translation system of plant cells"

arabidopsis_mitogenome

Scripts used in assembly of Arabidopsis thaliana Col-0 mitochondrial genome

arabidopsis_numt

Analysis of Arabidopsis thaliana Chromosome 2 numt

cymira

The Cytonuclear Molecular Interactions Reference for Arabidopsis

dbsloan.github.io

Sloan Lab

duplexseq

Scripts for analysis of duplex sequencing data

fgt

Perl script to implement the four-gamete test

mds_scripts

Scripts for analyzing MDS (maximum depths sequencing) datasets

msc_tree_resampling

Tree-level bootstrap and jackknife resampling for gene-tree datasets in multispecies coalescent analysis

mtdna_uv_damage

Scripts used in analysis of mtDNA UV damage

pcbl_njst

Scripts for automating Partitioned Coalescence Branch Length (PCBL) analysis using NJst

pcbl_star

Scripts for automating Partitioned Coalescence Branch Length (PCBL) analysis using STAR

pcs_astral

Scripts for automating Partitioned Coalescence Support (PCS) using ASTRAL

pcs_mpest

Scripts for automating Partitioned Coalescence Support (PCS) using MP-EST

perl_modules

Modules with commonly used functions

polymorphism_athal_mtdna

rf_distances_filter

Scripts for analyzing Robinson-Foulds distances from Simmons et al. 2016

sdpquartets

A Perl script for implementing Split Decomposition with Parsimony and quartet assembly (SDPquartets)