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Fig. 3 | BMC Bioinformatics

Fig. 3

From: GBS-SNP-CROP: a reference-optional pipeline for SNP discovery and plant germplasm characterization using variable length, paired-end genotyping-by-sequencing data

Fig. 3

Bar plot showing the extent of marker overlap among the five evaluated pipelines. The sets of SNPs called by the five pipelines are largely orthogonal to one another, as shown by the fact that both the reference-based and reference-independent pipelines call high proportions of SNPs called by no other pipeline (grey bars). Shared SNPs among pipelines are indicated by color-coordinated bars. Whereas only 0.6 and 0.4 % of the 8,907 and 5,593 SNPs called by TASSEL-GBS-64 and TASSEL-32, respectively, were identified by TASSEL-UNEAK, 33.7 % of the SNPs called by GBS-SNP-CROP-RG were called by GBS-SNP-CROP-MR01

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BMC Bioinformatics

ISSN: 1471-2105

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