IPENS: Interactive unsupervised framework for rapid plant phenotyping extraction via NeRF-SAM2 fusion

Advanced plant phenotyping technologies are vital for trait improvement and accelerating intelligent breeding. Due to the species diversity of plants, existing methods heavily rely on large-scale high-precision manually annotated data. For self-occluded objects at the grain level, unsupervised methods often prove ineffective. This study proposes IPENS, an interactive unsupervised multi-target point cloud extraction method. It utilizes radiance field information to lift 2D masks, segmented by SAM2 (Segment Anything Model 2), into 3D space for target point cloud extraction. A multi-target collaborative optimization strategy addresses the challenge of segmenting multiple targets from a single interaction. On a rice dataset, IPENS achieves a grain-level segmentation mean Intersection over Union (mIoU) of 63.72 ​%. For phenotypic trait estimation, it achieves a grain voxel volume coefficient of determination R ² ​= ​0.7697 (Root Mean Square Error, RMSE ​= ​0.0025), leaf surface area R ² ​= ​0.84 (RMSE ​= ​18.93), and leaf length and width prediction accuracies of R ² ​= ​0.97 and R ² ​= ​0.87 (RMSE ​= ​1.49 and 0.21). On a wheat dataset, IPENS further improves segmentation performance to a mIoU of 89.68 ​%, with exceptional phenotypic estimation results: panicle voxel volume R ² ​= ​0.9956 (RMSE ​= ​0.0055), leaf surface area R ² ​= ​1.00 (RMSE ​= ​0.67), and leaf length and width predictions reaching R ² ​= ​0.99 and R ² ​= ​0.92 (RMSE ​= ​0.23 and 0.15). Without requiring annotated data, IPENS rapidly extracts grain-level point clouds for multiple targets within 3 ​min using single-round image interactions. These features make IPENS a high-quality, non-invasive phenotypic extraction solution for rice and wheat, offering significant potential to enhance intelligent breeding.