BOLT-LMM for Windows

Windows implementation of BOLT-LMM by Po-Ru Loh using MinGW

Compiled with MinGW on a i7-8750H

Libraries used: OpenBLAS 0.3.7.dev.a 2019-07-24 (Compiled for Sandybridge), nlopt 2.6.1, boost 1.70.0

BOLT-LMM is a fantastic tool for Genome Wide Association Studies (GWAS) written by Po-Ru Loh. The original version is available here. Since it is originally written for Linux I had to modify some part of the code to make it compile with MinGW and run it on Windows.

Notes

If you run into errors, try installing MinGW and make sure the MinGW\bin folder is defined in your path.

BOLT-LMM was created to recognise colon as a sequence marquer, like in file_{1:22}.bed. Unfortunately that prevents us to use absolute paths in windows where the Drive letter is followed by a colon, like in C:\Path. In a recent release, the sequence marquer has been replaced by @ as in file_{1@22}.bed.

Author's website: http://remidaviet.com

Name		Name	Last commit message	Last commit date
Latest commit History 11 Commits
.gitignore		.gitignore
Bolt.cpp		Bolt.cpp
Bolt.hpp		Bolt.hpp
BoltMain.cpp		BoltMain.cpp
BoltParEstCV.cpp		BoltParEstCV.cpp
BoltParEstCV.hpp		BoltParEstCV.hpp
BoltParams.cpp		BoltParams.cpp
BoltParams.hpp		BoltParams.hpp
BoltReml.cpp		BoltReml.cpp
COPYING		COPYING
CovariateBasis.cpp		CovariateBasis.cpp
CovariateBasis.hpp		CovariateBasis.hpp
DataMatrix.cpp		DataMatrix.cpp
DataMatrix.hpp		DataMatrix.hpp
FileUtils.cpp		FileUtils.cpp
FileUtils.hpp		FileUtils.hpp
Jackknife.cpp		Jackknife.cpp
Jackknife.hpp		Jackknife.hpp
LDscoreCalibration.cpp		LDscoreCalibration.cpp
LDscoreCalibration.hpp		LDscoreCalibration.hpp
LICENSE		LICENSE
LapackConst.hpp		LapackConst.hpp
Makefile		Makefile
MapInterpolater.cpp		MapInterpolater.cpp
MapInterpolater.hpp		MapInterpolater.hpp
MatrixUtils.cpp		MatrixUtils.cpp
MatrixUtils.hpp		MatrixUtils.hpp
MemoryUtils.cpp		MemoryUtils.cpp
MemoryUtils.hpp		MemoryUtils.hpp
NonlinearOptMulti.cpp		NonlinearOptMulti.cpp
NonlinearOptMulti.hpp		NonlinearOptMulti.hpp
NumericUtils.cpp		NumericUtils.cpp
NumericUtils.hpp		NumericUtils.hpp
PhenoBuilder.cpp		PhenoBuilder.cpp
PhenoBuilder.hpp		PhenoBuilder.hpp
README.md		README.md
RestrictSnpSet.cpp		RestrictSnpSet.cpp
RestrictSnpSet.hpp		RestrictSnpSet.hpp
SnpData.cpp		SnpData.cpp
SnpData.hpp		SnpData.hpp
SnpInfo.cpp		SnpInfo.cpp
SnpInfo.hpp		SnpInfo.hpp
SpectrumTools.cpp		SpectrumTools.cpp
SpectrumTools.hpp		SpectrumTools.hpp
StatsUtils.cpp		StatsUtils.cpp
StatsUtils.hpp		StatsUtils.hpp
StringUtils.cpp		StringUtils.cpp
StringUtils.hpp		StringUtils.hpp
Timer.cpp		Timer.cpp
Timer.hpp		Timer.hpp
Types.hpp		Types.hpp
build.bat		build.bat
memcpy.cpp		memcpy.cpp
mingw-Makefile.mak		mingw-Makefile.mak

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