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#Hapl-o-Mat v 1.1

##General information Hapl-o-Mat is software for haplotype inference via an expectation-maximization algorithm. It supports processing and resolving various forms of HLA genotype data.

##The latest version The latest version can be found on the Github server under https://github.com/DKMS/Hapl-o-Mat

##Requirements Installing Hapl-o-Mat requires a C++ compiler with C++11 support. To produce the required data on HLA nomenclature python (version 2 or 3) is required.

##Installing under Linux Get Hapl-o-Mat via

git clone https://github.com/DKMS/Hapl-o-Mat

Using GNU compiler collection (GCC), Hapl-o-Mat is compiled via a Makefile:

make
make clean

If you use another compiler than GCC, adapt the compiler flags in the Makefile, e.g. -march=native.

##Installing under Windows A detailed explanation on how to install Hapl-o-Mat under Windows using the Eclipse IDE for C/C++ Developers can be found in detailedGettingStartedWindows.pdf.

##Usage For information on how to use Hapl-o-Mat and some tutorials using Linux follow the guide detailedGettingStartedLinux.pdf. If you are a seasoned Linux user, refer to gettingStarted. If you use Windows, follow the guide detailedGettingStartedWindows.pdf.

##Citation If you use Hapl-o-Mat for your research, please cite

(Until our journal article appears) C. Schäfer, A.H. Schmidt, J. Sauter: Hapl-O-mat: A Versatile Software for Haplotype Frequency Estimation. HLA (2016), 87, 236–320

##Contributors If you want to participate in actively developing Hapl-o-Mat please join via Github

##Author Dr. Christian Schäfer

##Contact Dr. Jürgen Sauter DKMS gGmbH
Kressbach 1
72072 Tuebingen, Germany

T +49 7071 943-2060
F +49 7071 943-2090
sauter(at)dkms.de

##License Copyright (C) 2016, DKMS gGmbH

DKMS gGmbH
Kressbach 1
72072 Tuebingen, Germany

T +49 7071 943-2060
F +49 7071 943-2090
sauter(at)dkms.de

Hapl-o-Mat is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3, or (at your option) any later version.

Hapl-o-Mat is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with Hapl-o-Mat; see the file COPYING. If not, see http://www.gnu.org/licenses/.