From: Accuracy of RNAseq based SNP discovery and genotyping in Populusnigra
Variant calling modality | Missing value in genotype calls | ||
---|---|---|---|
noNA | 2NA | anyNA | |
GATK | 464,829 | 555,828 | 902,256 |
gVCF_GATK | 407,037 | 497,314 | 927,522 |
FreeBayes | 492,073 | 640,445 | 795,459 |
Mpileup | 496,688 | 594,932 | 949,411 |
3Callers | 341,584 | 366,123 | 400,392 |
4Callers | 252,887 | 262,447 | 271,399 |
3CallersConsensus | 356,275 | 442,931 | 785,377 |