Fig. 4
From: Benchmarking variant identification tools for plant diversity discovery
Comparison between three variant filtering methods using PCA and LD decay to estimate false positive and false negative ratios. a Unshared HARD filtered SNPs were not able to clearly separate cluster 2 and 3. b Unshared ML filtered SNPs were not able to clearly separate cluster 2 and 3. c Unshared COMBINED filtered SNPs were able to clearly separate 4 clusters. d Comparison of LD decay among four sets of SNPs