FaST-LMM is the result of research conducted by members of Microsoft Research's eScience group.
You may find more current and ongoing research results at their
FaST-LMM (Factored Spectrally
Transformed Linear Mixed
Models) is a program for performing genome-wide association studies (GWAS) on large data sets. It runs on both Windows and Linux system, and has been tested on data sets with over 120,000 individuals.
FaST-LMM is described more fully in the paper at http://www.nature.com/nmeth/journal/v8/n10/abs/nmeth.1681.html:
C. Lippert, J. Listgarten, Y. Liu, C.M. Kadie, R.I. Davidson, and D. Heckerman. FaST Linear Mixed Models for Genome-Wide Association Studies.
Nature Methods 8, 833-835, 2011 (doi:10.1038/nmeth.1681).
In addition to the Source Code tab, the Downloads tab contains zip files with binaries that are ready to run on 64-bit Windows and Linux systems. You can also download the source files and compile them for your specific situation. More details
on how to build are covered in the User's Manual included with the source, which can also be previewed under the Documentation tab.
See associated log entries for more details on specific release features.
See the MSR
eScience site for FaST-LMM for additional news and developments
2012/04/06 - v1.09 - Several usability enahancements (MaxThreads), update to latest MKL libs (v10.3.7),
and misc fixes
2012/03/17 - v1.08 - Improve perf of SNC detection, add -extractSimTopK option, doc updates,
2012/03/06 - v1.07 - Fix bug 17541 -sim option not processing the alternate phenotype file properly
2012/02/27 - v1.06 - Detection and filtering of constant genotypes in a SNP
+ Bug fixes for binary and transposed files
2012/02/02 - v1.05 - Bug fixes
2012/01/05 - v1.04 - Add support for using dosage information + bug fixes
2011/11/21 - v1.03 - Add several perf enhancements relating -extract and -numjobs for improved
throughput and reduce memory usage
2011/09/27 - v1.02 - Add several perf enhancements relating to C++ for improved throughput and
reduce memory usage
2011/09/14 - v1.01 - Add -extract support to C# and small clean-up changes
2011/09/04 - v1.00 - Initial Release