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'''MaCH''' (MArkov Chain Haplotyping) is a software for phasing and genotype imputation.
'''MaCH''' is a tool for haplotyping, genotype imputation and disease association analysis developed by Goncalo Abecasis and Yun Li. MaCH was first used to imputed missing genotypes in our FUSION genomewide association study ([http://www.sph.umich.edu/csg/abecasis/publications/17463248.html Scott et al, ''Science'', 2007]) and has since been used in the analysis of many other GWAS.
This page includes links to several useful MaCH related resources.
* The main MaCH webpage at http://www.sph.umich.edu/csg/abecasis/MaCH/
* The MaCH download page, with source code, executables and reference haplotype files at http://www.sph.umich.edu/csg/abecasis/MaCH/download/
* The MaCH tutorial at http://www.sph.umich.edu/csg/abecasis/MaCH/tour/
* [[MaCH FAQ|The MaCH FAQ]]
* [[MaCH Options|MaCH Options]]
* [[MaCH: Input Files|Information on MaCH input formats]]
* [[MaCH: 1000 Genomes Imputation Cookbook|1000 Genomes Imputation Cookbook]]
* [[MaCH: machX|Chromosome X Imputation]]
* [[Mach2dat: Association with MACH output]]
Currently, it also includes random notes on input file formats, but these probably need to be cleaned up!
[[Category:Software]]
