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Old 11-30-2015, 03:11 PM   #1
jamespower
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Location: usa

Join Date: Nov 2015
Posts: 1
Default Beagle files using the latest 1000 genomes

Hello!

I am very confused...I would like to get the latest beagle files from vcf files from phase 3 version 5 of the 1000 genomes data here:

http://bochet.gcc.biostat.washington...es_phase3_v5a/, which uses these 1000 Genomes vcf files: ftp://ftp.1000genomes.ebi.ac.uk/vol1...ease/20130502/



In particular I am trying to get something like what was available for the previous releases to create the files:

ALL.chr1.phase1_release_v2.20101123.filt.bgl.gz
ALL.chr16.phase1_release_v2.20101123.filt.tabix.gz
ALL.chr1.phase1_release_v2.20101123.filt.markers



Would I need to modify the script here with the BEAGLE utilities?

https://data.broadinstitute.org/srla...agle_phase1_v3
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