Automatic Measurement of Seed Geometric Parameters Using a Handheld Scanner

Seed geometric parameters are important in yielding trait scorers, quantitative trait loci, and species recognition and classification. A novel method for automatic measurement of three-dimensional seed phenotypes is proposed. First, a handheld three-dimensional (3D) laser scanner is employed to obtain the seed point cloud data in batches. Second, a novel point cloud-based phenotyping method is proposed to obtain a single-seed 3D model and extract 33 phenotypes. It is connected by an automatic pipeline, including single-seed segmentation, pose normalization, point cloud completion by an ellipse fitting method, Poisson surface reconstruction, and automatic trait estimation. Finally, two statistical models (one using 11 size-related phenotypes and the other using 22 shape-related phenotypes) based on the principal component analysis method are built. A total of 3400 samples of eight kinds of seeds with different geometrical shapes are tested. Experiments show: (1) a single-seed 3D model can be automatically obtained with 0.017 mm point cloud completion error; (2) 33 phenotypes can be automatically extracted with high correlation compared with manual measurements (correlation coefficient (R2) above 0.9981 for size-related phenotypes and R2 above 0.8421 for shape-related phenotypes); and (3) two statistical models are successfully built to achieve seed shape description and quantification.