From: Shape-IT: new rapid and accurate algorithm for haplotype inference
Datasets | Chromosome | #datasets | #SNP | #indiv | Details |
---|---|---|---|---|---|
CEU Size | 1 to 5 | 250 | 10 to 160 | 60 | 50 datasets of 10, 20, 40, 80 and 160 adjacent SNPs with MAF above 5% |
CEU Density | 1 to 5 | 300 | 40 | 60 | 50 datasets with spanned distance between SNP above 0, 0.5, 1, 2, 4 and 8 kb (MAF 5%) |
CEU MAF | 1 to 5 | 150 | 40 | 60 | 50 datasets with MAF above 1%, 5% and 10% |
YRI Size | 1 to 5 | 250 | 10 to 160 | 60 | 50 datasets of 10, 20, 40, 80 and 160 adjacent SNPs with MAF above 5% |
YRI Density | 1 to 5 | 300 | 40 | 60 | 50 datasets with spanned distance between SNP above 0, 0.5, 1, 2, 4 and 8 kb (MAF 5%) |
YRI MAF | 1 to 5 | 150 | 40 | 60 | 50 datasets with MAF above 1%, 5% and 10% |
CEU illumina 50 | 12 | 300 | 50 | 60 | 15,000 illumina SNPs grouped by dataset of 50 SNPs |
CEU illumina 100 | 12 | 150 | 100 | 60 | 15,000 illumina SNPs grouped by dataset of 100 SNPs |
CEU illumina 200 | 12 | 75 | 200 | 60 | 15,000 illumina SNPs grouped by dataset of 200 SNPs |
GRIV | 1 | 90 | 50 to 200 | 100 to 300 | 3,500 illumina SNPs grouped by dataset of 50, 100 and 200 SNPs |