Thomas Williams, Melissa Gymrek, G. David Poznik, Chris Tyler-Smith, The 1000 Genomes Working Group and
Yaniv Erlich (2016),
Chromosome-Wide Characterization of Y-STR Mutation Rates. Retrieved Nov 27, 2016 from bioRxiv.org
Poznik et al. (2013), Sequencing Y Chromosomes Resolves Discrepancy in Time to Common Ancestor of Males
Versus Females. Retrieved Feb 17, 2018 from Science.
This is an inventory of bio-informatic software used to prepare raw data, which was not custom written for Haplogroup-R.org.
GATK version 4 - Used
for preparing gVCF files for BAM samples, joint genotyping batches, and variant filtration.
All known variant information not cited above is sourced from ISOGG YBrowse. When the ancestral
and derived state disagree with Fitch parsimony results, the corrected values are shown in the Variant Index.