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, 18:05, 4 October 2010
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| == Getting Started == | | == Getting Started == |
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− | === Your Own Data === | + | === Step 1: Pre-Phasing === |
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| + | For the pre-phasing step we recommend [[MaCH]] using the --phase command line option. As input [[MaCH]] needs a [[Merlin]] format pedigree and data file. All markers must be ordered according to their physical position. |
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| + | ==== Your Own Data ==== |
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| To get started, you will need to store your data in [[Merlin]] format pedigree and data files, one per chromosome. For details, of the Merlin file format, see the [http://www.sph.umich.edu/csg/abecasis/Merlin/tour/input_files.html Merlin Tutorial]. | | To get started, you will need to store your data in [[Merlin]] format pedigree and data files, one per chromosome. For details, of the Merlin file format, see the [http://www.sph.umich.edu/csg/abecasis/Merlin/tour/input_files.html Merlin Tutorial]. |
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| The 1000 Genome pilot project genotypes use NCBI Build 36. | | The 1000 Genome pilot project genotypes use NCBI Build 36. |
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− | === Step 1: Pre-Phasing ===
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− | For the pre-phasing step we recommend [[MaCH]] using the --phase command line option. As input [[MaCH]] needs a [[Merlin]] format pedigree and data file. All markers must be ordered according to their physical position.
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| ==== Usage ==== | | ==== Usage ==== |