Fig. 2
From: Accuracy of RNAseq based SNP discovery and genotyping in Populusnigra
Variant discovery in 12 Populus nigra genotypes. Number of variants discovered with each of the four callers (“GATK” in red; “gVCF_GATK” in blue; “FreeBayes” in green and “Mpileup” in purple) after applying different filters (“Raw”: no filters; “Biallelic SNPs”: indel removed; only biallelic SNPs retained; “QUAL ≥ 30”: SNP quality greater than 30 retained; “Intranigra/anyNA”: SNP polymorphic in P. nigra retained; “Intranigra/2NA”: SNP polymorphic in P. nigra with at most 2 missing genotype values retained; “noNA”: SNP polymorphic in P. nigra without missing genotype value retained)