SOFTWARE
AdapterRemoval2: NGS data trimming and collapsing
CASCADE: a Custom-made Archiving System for the Conservation of Ancient DNA Experimental data
DamMet: statistical modeling and inference of ancient DNA methylation
epiPaleomix: inference of ancient DNA methylation and nucleosomal positioning
gargammel: in silico simulation of ancient DNA sequence data
HumanOs: an open source nomadic software database for physical anthropology and archaeology
LSD: Detecting signatures of positive selection along the internal and external branches of a population tree
mapDamage2: visualisation and statistical modelling of post-mortem DNA damage
mapDATAge: a ShinyR package to chart ancient DNA data through space and time
metaBIT: automated microbial taxonomic profiling
Paleomix: automated processing and mapping of (ancient DNA) NGS data, and more
ROHan: Joint inference of Runs of Homozygosity and rates of heterozygosity from ancient and modern DNA data
Structf4: Inference of ancient population structure from f4 statistics
Zonkey: automated sex and taxonomic identification in equine species and their hybrids