Changes

Download [http://www.sph.umich.edu/csg/abecasis/MaCH/download/ MaCH] and [http://genome.sph.umich.edu/wiki/Minimac#Download Minimac] or [http://genome.sph.umich.edu/wiki/Minimac2#Download Minimac2]. Furthermore, example data used in this tutorial can be found [http://www.sph.umich.edu/csg/abecasis/downloads/minimac_example.tar.gz here]

Download [http://www.sph.umich.edu/csg/abecasis/MaCH/download/ MaCH] and [http://genome.sph.umich.edu/wiki/Minimac#Download Minimac] or [http://genome.sph.umich.edu/wiki/Minimac2#Download Minimac2]. Furthermore, example data used in this tutorial can be found [http://www.sph.umich.edu/csg/abecasis/downloads/minimac_example.tar.gz here]

== Minimac Imputation ==

== Minimac and Minimac2 Imputation ==

[[Minimac]] and [[Minimac2]] relies on a two step approach. First, the samples that are to be analyzed must be phased into a series of estimated haplotypes. Second, imputation is carried out directly into these phased haplotypes. As newer reference panels become available, only the second step must be repeated.

[[Minimac]] and [[Minimac2]] relies on a two step approach. First, the samples that are to be analyzed must be phased into a series of estimated haplotypes. Second, imputation is carried out directly into these phased haplotypes. As newer reference panels become available, only the second step must be repeated.