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Fig. 2 | BMC Bioinformatics

Fig. 2

From: CollapsABEL: an R library for detecting compound heterozygote alleles in genome-wide association studies

Fig. 2

Genome-shifting algorithm compared with sliding-window algorithm. The genome-shifting algorithm starts with a PLINK binary genotype file (the bed file), and shift the whole genome one SNP at a time, each time generating a new bed file containing collapsed genotypes. The total number of new bed files is equal to the user-specified window size k. a Shift by 1 SNP. b Shift by 2 SNPs. The sliding-window algorithm generates collapsed genotypes for all possible combinations of SNP pairs within a window, and at each iteration slides the window forward by one SNP. c 1st sliding window. d 2nd sliding window

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BMC Bioinformatics

ISSN: 1471-2105

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