Additional file 1 of Simultaneous testing of rule- and model-based approaches for runs of homozygosity detection opens up a window into genomic footprints of selection in pigs

Additional file 1: Table S1. Iterations for different read depth parameters

Additional file 7 of Simultaneous testing of rule- and model-based approaches for runs of homozygosity detection opens up a window into genomic footprints of selection in pigs

Additional file 7: Table S7. Overlap of ROHs between RZooRoH, PLINK_A and PLINK_B datasets in base pairs (bp)

Additional file 8 of Simultaneous testing of rule- and model-based approaches for runs of homozygosity detection opens up a window into genomic footprints of selection in pigs

Additional file 8: Table S8. ROH regions identified for heritage pigs using PLINK_A and PLINK_B and RZooRoH

Additional file 12 of Simultaneous testing of rule- and model-based approaches for runs of homozygosity detection opens up a window into genomic footprints of selection in pigs

Additional file 12: Table S12. Overlap of ROH regions (ROHRs) identified for lop and prick ear phenotypes

Additional file 2 of Simultaneous testing of rule- and model-based approaches for runs of homozygosity detection opens up a window into genomic footprints of selection in pigs

Additional file 2: Table S2. Filtering for mean read depth and missing genotypes

Additional file 9 of Simultaneous testing of rule- and model-based approaches for runs of homozygosity detection opens up a window into genomic footprints of selection in pigs

Additional file 9: Table S9. Functional PANTHER gene enrichment analysis for annotated pig genes identified in ROHRs

Additional file 1 of TADA—a machine learning tool for functional annotation-based prioritisation of pathogenic CNVs

Additional file 1 Figures S1-S21. Tables S1-3

Additional file 6 of Simultaneous testing of rule- and model-based approaches for runs of homozygosity detection opens up a window into genomic footprints of selection in pigs

Additional file 6: Table S6. Number of ROHs overlapping between RZooRoH, PLINK_A and PLINK_B

Additional file 5 of Simultaneous testing of rule- and model-based approaches for runs of homozygosity detection opens up a window into genomic footprints of selection in pigs

Additional file 5: Table S5. Number of ROHs for tolerated heterozygous and missing SNPs in PLINK

Additional file 13 of Simultaneous testing of rule- and model-based approaches for runs of homozygosity detection opens up a window into genomic footprints of selection in pigs

Additional file 13: Table S13. DNA samples used for the evaluation of SNP filtering and ROH detection parameters