IMPORTANT NOTICE: JANUARY 2006 From 2006, all MORGAN source code is made freely available for any use, including modification and redistribution:

PANGAEA currently consists of ten packages: Release history .

Currently active packages

• MORGAN
  • MORGAN version 3.1.1: Nov 2012; includes fully integrated and updated IBD_Haplo
    
  • MORGAN 3 Tutorial and examples for download. Also online version.
    Examples and tutorial tect updated for MORGAN 3.1.1 (incl. IBD_Haplo), December 2012.
    Original MORGAN-3 version October 2011; corrections and updates December 2011.
  • MORGAN version 2.9 (November 2008) remains available for those who wish to use it.
    
  • MORGAN Tutorial and examples
    • Both download and online versions are updated for MORGAN 2.9 (September 2010)
    • Updated examples file for use with MORGAN 2.9 is also released September 2010.
      
  • MORGAN 2.9 Mac and Win 32 Executables (September, 2008)
  • MORGAN SCRIPTS (July 2007), SIMULATED TEST DATA (Dec 2007), and Linkage file examples (Dec 2009).
    • For other related scripts see also SimSuite Ver 1.0 Scripts of the Wijsman group (released March 2009).
    • Script to translate from LINKAGE to MORGAN and examples; updated for MORGAN 3.0.3, December 2011;
      improved and re-released March 2012.
  
  
• IBD_Haplo is now fully integrated into MORGAN 3.1 (and later releases)
  First release, October 2009. Release of version 2.1 October 2011.
  IBD_Create Programs to generate IBD at varying LD
  First release October 2011 (includes programs previously in IBD_Haplo).
  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 summary statistics.
  Documentation and tutorial included in the package tar file.
  
  
• The files to recreate the analyses of the January 2012 IBDmerge paper: 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 python and C.
  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).
  
  
• ALBERT (May 2006)
• Eclipse (version 1.1); Documentation (updated 10/2003)

Maintained packages

• Loki version 2.4.5 (with links also to Loki home page and more recent versions)
• Pedfiddler version 0.6 : with new Mac OSX Binary of version 0.5 (September 2008)
  Windows executables for Pedfiddler version 0.6, added April 2010.
• MCLEEPS 1.1 and NewHybrids 1.0

Old packages

• Pedpack
• InSegT
• HARDY
• BOREL

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 here.

For a brief release history, click here.