Pedigree Analysis for Genetics
(and Epidemiological Attributes)
IMPORTANT NOTICE: MARCH 2005 Consequent on UW's decision to cease
Anonymous FTP support, all download links have been moved to a
source. If you have problems with any download links, please try
this link, and also report problem to Elizabeth Thompson
IMPORTANT NOTICE: JANUARY 2006 From 2006, all MORGAN source code is made
freely available for any use, including modification and redistribution:
PANGAEA: See the
Release history , for the full list of software
MORGAN version 3
MORGAN version 2.9
(November 2008) remains available for those who wish to use it.
MORGAN SCRIPTS (July 2007),
SIMULATED TEST DATA (Dec 2007),
Linkage file examples (Dec 2009).
- For other related scripts see also
SimSuite Ver 1.0 Scripts of the Wijsman group (released March 2009).
to translate from LINKAGE to MORGAN and examples; updated
for MORGAN 3.0.3, December 2011;
improved and re-released March 2012.
Mathematics code by Chaozhi Zheng for the analyses of MCMC
IBD states described in Zheng et. al. (2014; Journal of Computational Biology).
Released February 2014.
IBD_Create Version 2.0 Programs to generate IBD at varying LD
New release with significant updates and reorganization of programs.
See the documentation for details.
Version 1.0 released October 2011.
IBDhaploRtools Version 1.5 is released to CRAN, March 2013.
First release, March 2011. Version 1.2 released November 2011.
These R tools analyze the output of IBD_Haplo, producing various plots and
Documentation and tutorial included in the package tar file.
is now fully integrated into
MORGAN 3.1 (and later releases)
First release, October 2009. Release of version 2.1 October 2011.
GIGI: Genotype Imputation Given Inheritance
See the web page for this MORGAN-related package; version 1.04 released November 2013.
The files to recreate the analyses of the January 2012 IBDmerge
Glazner, C. G., and Thompson, E. A. (2012).
IBDgraph 2.0: another C-library add-on for MORGAN 3
with brief install and test run documentation for
First upload, March 2010; Version 2.0.1 released August 2010.
For a description of this software see
Koepke, H.A., and Thompson, E. A. (UW Statistics Technical Report #567).
This collection of packages and documentation is managed by
Dr. Elizabeth Thompson
The development of packages MORGAN (2 and 3), the IBD packages, Loki
(up to 2.1.2),
Eclipse and InSegT were supported
by NIH Grant GM-46255. Other packages
were supported by other research funds.
For specification in the format of the Rockefeller list of
genetic analysis software, click
For a brief release history, click