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| This page documents how to carry out imputation using [http://mathgen.stats.ox.ac.uk/impute/impute_v2.html IMPUTE2] software (developed by Jonathan Marchini and Bryan Howie) and 1000 Genomes reference panel haplotypes. | | This page documents how to carry out imputation using [http://mathgen.stats.ox.ac.uk/impute/impute_v2.html IMPUTE2] software (developed by Jonathan Marchini and Bryan Howie) and 1000 Genomes reference panel haplotypes. |
− | For information on how to carry out 1000 Genomes Imputation using [[Minimac]], see [[Minimac: GIANT 1000 Genomes Imputation Cookbook]]. | + | For information on how to carry out 1000 Genomes Imputation using [[Minimac]], see [[Minimac:_1000_Genomes_Imputation_Cookbook]]. |
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| As of now, the most recent version of the 1000 Genome Project haplotypes are the Phase I Integrated release haplotypes (available in IMPUTE2 format from [http://mathgen.stats.ox.ac.uk/impute/data_download_1000G_phase1_integrated.html this link]). This haplotype set is more complete and more accurate than prior 1000 Genome Project haplotypes and is recommended for all imputation based analyses. | | As of now, the most recent version of the 1000 Genome Project haplotypes are the Phase I Integrated release haplotypes (available in IMPUTE2 format from [http://mathgen.stats.ox.ac.uk/impute/data_download_1000G_phase1_integrated.html this link]). This haplotype set is more complete and more accurate than prior 1000 Genome Project haplotypes and is recommended for all imputation based analyses. |