Scaling up: A guide to high‐throughput genomic approaches for biodiversity analysis
The purpose of this review is to present the most common and emerging DNA‐based methods used to generate data for biodiversity and biomonitoring studies. As environmental assessment and monitoring programmes may require biodiversity information at multiple levels, we pay particular attention to t...
davidemms/OrthoFinder: Accurate inference of orthologous gene groups made easy. "OrthoFinder: sol...
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Analysis of Human Sequence Data Reveals Two Pulses of Archaic Denisovan Admixture
Anatomically modern humans interbred with Neanderthals and with a related archaic population known as Denisovans. Genomes of several Neanderthals and one Denisovan have been sequenced, and these reference genomes have been used to detect introgressed genetic material in present-day human genomes....
Runs of homozygosity: windows into population history and trait architecture
The inheritance of identical haplotypes from a common ancestor creates long tracts of homozygous genotypes known as runs of homozygosity (ROH).

ROH are ubiquitous across human populations, and they correlate with pedigree inbreeding. Larger populations have fewer, shorter ROH, whereas isolated...
STAG: Species Tree Inference from All Genes - biorxiv
Species tree inference is fundamental to our understanding of the evolution of life on earth. However, species tree inference from molecular sequence data is complicated by gene duplication events that limit the availably of suitable data for phylogenetic reconstruction. Here we propose a novel m...