SAEC exec sum

Revision as of 15:37, 18 January 2008 by Bjagla (talk | contribs) (Data reformatting)

SAEC Executive summary of data preparation

"[+]" denotes hidden additional information. Clicking on the "+" shows that information. "-" denotes available mouse-over information.

Data reformatting

The original Illumina data that came in four comma separated files [+] where divided up by subject and stored in separate files [**]. 4 subject duplicates in Illumina records were removed based on their call rate[+].

PGx40001_12278-DNA.csv
PGx40001_GSK_SJS_B137_28Aug2007_Genotype_Report_12276-DNA.csv
PGx40001_GSK_SJS_B137_28Aug2007_Genotype_Report_12277-DNA.csv
PGx40001_GSK_SJS_B137_28Aug2007_Genotype_Report_12914-DNA.csv

WG0012277-DNA_A10_2948_A10 and WG0012277-DNA_F04_2948_F04.

PLINK input data

removing SNPs without founder genotype

Individuals removed

SNPs removed