Softwares & Databases

My Bronze Age Origins Test
A commerical software that provides a breakdown of one's ancestry to 6-10 gene pools, the genetic distance to 7-25 Bronze Age cultures, and their genetic history.

To the website.

aYChr-DB - Ancient Y chromosomal database
aYChr-DB is a comprehensive collection of 1797 ancient Eurasian human Y-Chromosome haplogroups ranging from 44,930 BC to 1945 AD. It includes descriptors of age, location, genomic coverage and associated archaeological cultures.

To the database.

Temporal Population structure (TPS)
A tool to gneomically date ancient genomes. TPS can be used when radiocarbon dating is unavailable or to develop alternative hypotheses. TPS is applicable to any Eurasian ancient genome that has over 15K SNPs that overlap with TPS's database

To the software.

Ancient DNA Hub
An hub of knolwedge on ancient people. The site summarizes the knonwn about ancient cultures and is typically organized by site.

To the website.

GPS Origins
A commerical software that provides a breakdown of one's ancestry to 42 gene pools, geographical origins of the parental DNA, two migration routes, and historical context.
GPS Origins is based on the mini-DREAM microarray, developed by Eran Elhaik.
Most recently, Baughn et al. (2018) employed this technology to identify the population structure in a cancer study.

To the website.

Pairwise matcher (PaM)
This website allowed uploading PLINK files with cases and controls.
The matcher optimizes the matching of case-control pairs.

To the website.

Geographic population structure analysis of worldwide human populations infers their biogeographical origins.
The R code for the GPS algorithm was published withh the paper.
This page was developed by Dr. Tatarinova. and it contains the calculator that converts Admxiture components into geographic coordinates.

For questions about the GPS.
GPS code in R.
To the paper.

HAPZIPPER: sharing HapMap populations just got easier.
HAPZIPPER is a lossless compression tool tailored to compress HapMap data beyond benchmarks defined by generic tools such as GZIP, BZIP2 and LZMA. Code and detailed examples are available at the official website.

To the paper.
To the code.

Identifying compositionally homogeneous and nonhomogeneous domains within the human genome using a novel segmentation algorithm.
This page is a companion for an original paper that describes IsoPlotter, a recursive DNA segmentation algorithm employs a dynamic threshold, and proposes a statistical test to assay the homogeneity of the inferred domains. This page hosts IsoPlotter and the statistical test as described in the paper.

To the paper.
To the Old code and examples.
To the new code.

Comparative testing of DNA segmentation algorithms using benchmark simulations.
This page is a companion for an original paper that describes a benchmark for comparing DNA segmentation algorithms.

To the paper.
To the Software used in the paper.

Modern men are the 'sorriest cohort of masculine Homo sapiens
to ever walk the planet.'
From Manthropology by Peter McAllister