From: Bis-SNP: Combined DNA methylation and SNP calling for Bisulfite-seq data
Sample | Aligner | reference | cvg | Het SNPs | Hom SNPs | Callable bases | runtime |
---|---|---|---|---|---|---|---|
OTB | MAQ | hg18 | 32× | 119,103 | 67,725 | 211,042,010 | 2.8 h |
TCGA-lung-normal | BSMAP | hg19 | 19× | 118,412 | 58,309 | 222,763,786 | 3.1 h |
TCGA-breast-normal | BSMAP | hg19 | 19× | 113,009 | 57,281 | 221,014,965 | 2.7 h |
Mouse-F1i | Novoalign | mm9 | 50× | 663,528 | 65,364 | 178,718,615 | 3.1 h |
Mouse-F1r | Novoalign | mm9 | 41× | 682,979 | 67,068 | 178,847,508 | 3.1 h |