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Fig. 4 | BMC Genomics

Fig. 4

From: Simultaneous testing of rule- and model-based approaches for runs of homozygosity detection opens up a window into genomic footprints of selection in pigs

Fig. 4

Test of PLINK’s ROH detection parameters defining a ROH segment. a The number of detected ROHs for different minimum SNP counts (homozyg-snp) and maximum gap sizes between two SNPs (homozyg-gap, on top of each plot) is displayed. A higher number of ROHs with a lower ROH length is detected by using the less stringent default parameter settings (blue). b Test settings for ROH detection based on SNP density. The number of detected ROHs for a maximum inverse density (homozyg-density) and the maximum gap size between two ROHs (homozyg-gap, on top of each plot) are given. The highest number of ROHs was identified for homozyg-density of 0.08 kb/SNP based on custom parameter settings (red) and homozyg-density of 0,12 kb/SNP for default parameter settings (blue)

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BMC Genomics

ISSN: 1471-2164

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