Changes between Version 3 and Version 4 of Test imputation pipeline


Ignore:
Timestamp:
Feb 17, 2012 1:02:00 PM (13 years ago)
Author:
a.kanterakis
Comment:

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  • Test imputation pipeline

    v3 v4  
    66 * Download VCF files from : ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20110521
    77 * Export only the SNPs (filter out the indels and SVs) from VCF data by using [http://vcftools.sourceforge.net/ vcftools]
     8{{{
     9vcftools \
     10--gzvcf ALL.chr1.phase1_release_v2.20101123.snps_indels_svs.vcf.gz \
     11--keep-INFO LCSNP --keep-INFO EXSNP --keep-INFO SNP \
     12--IMPUTE \
     13--out ALL.chr1.phase1_release_v2.20101123.snps_indels_svs.
     14}}}
    815
    916The study panel is an artificial genotype dataset. Created by
    1017The study panel is an artificial genotype dataset. Created by
    1118The study panel is an artificial genotype dataset. Created by
     19The study panel is an artificial genotype dataset. Created by