On the ancestry and evolution of the extinct dire wolf

This repository contains data files and scripts used for the publication "On the ancestry and evolution of the extinct dire wolf". This includes:

Supplementary_Tables: A single file with all supplementary tables (as tabs) referenced in the manuscript:
S1: Sequencing library statistics for all ancient samples.
S2: Reference assembly accessions used in study
S3: Alignment statistics for all ancient samples
S4: Iterative mapping and polishing statistics for paleogenome reconstruction
S5: Gene annotation information for paleogenome reconstruction
S6: Allele sharing statistics for residual reference bias assessment
S7: Mash distance metrics for genetic distance
S8: Short read dataset accessions used in study
S9: Mitochondrial genome accessions used in study
S10: Age estimates for nodes in phylogenetic tree
S11: Summary of admixture methods and models
    
dw_samps.hom.uniq.DP5.GQ10.VAF2.long-form: List of high confidence homozygous variants supported from both dire wolf specimens. 

mAenDir1.fa.gz: genome assembly for dire wolf generated using iterative mapping via Pilon.