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structure
The program structure is a free software package for using multi-locus
genotype data to investigate population structure. Its uses include inferring
the presence of distinct populations, assigning individuals to populations,
studying hybrid zones, identifying migrants and admixed individuals, and
estimating population allele frequencies in situations where many individuals
are migrants or admixed. It can be applied to most of the commonly-used
genetic markers, including microsatellites, RFLPs and SNPs. This method
was described in an article in Genetics 2000 (155: 945-959).
[Abstract],
[Manuscript],
[Example].
["Time-lapse"
plots].
[Download Structure v 1.0]
[Download beta release of Structure
v 2.0 (with graphical front end)]
Plotting
program (by Noah Rosenberg) and data used for "Genetic Structure of
Human Populations" (Science Dec 2002).
STRAT
The program STRAT is a companion program to
structure. This
is a structured association method, for use in association mapping,
enabling valid case-control studies even in the presence of population
structure. This method was described in an article in Am. J. Hum Genet
2000 (67:170-181). [Abstract],
[Manuscript],
[Review
of structured association methods].
[Download software].
Note: in July 2002 we were alerted to a bug in the chi-square calculation
for this program. This has now been corrected.
Simulation programs
Download the simulation programs used for my
July 2001 AJHG article. One program is an implementation of the ancestral
selection graph (for simulating genealogies with selection). The other
program simulates a multi-locus model of complex disease.
Please report any problems to me at pritch@genetics.uchicago.edu.
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