Scalable Detection of Fossil Palynomorphs in Multifocal Digital Microscopy Images

• URL: http://arxiv.org/abs/2609.05323v1
• Date: Fri, 04 Sep 2026 16:18:10 GMT
• Title: Scalable Detection of Fossil Palynomorphs in Multifocal Digital Microscopy Images
• Abstract summary: Palynomorphs are important high-resolution records of past climates and are critical to the study of ancient ecosystems.<n>Existing methods rely on manual analysis of high-resolution, multifocal digital microscopy images.<n>Our work proposes the first ever scalable end-to-end pipeline for automated palynomorph detection in whole slide images.
• Score: 34.18451733542759
• License: http://creativecommons.org/licenses/by-sa/4.0/
• Abstract: Palynomorphs (microscopic, organic-walled fossils such as pollen, spores, and dinoflagellates) are important high-resolution records of past climates and are critical to the study of ancient ecosystems. Existing methods rely on manual analysis of high-resolution, multifocal digital microscopy images, which is slow and time-consuming and requires researchers to compromise on the scale of their investigations. To the best of our knowledge, our work proposes the first ever scalable end-to-end pipeline for automated palynomorph detection in whole slide images that addresses this bottleneck through: (1) efficient methods for decomposing and compressing digitized multifocal microscope slide images into tractable 2-dimensional tiles for analysis; (2) benchmarking modern object detection models, including RF-DETR, for the detection of palynomorphs, achieving an AP@50 of 0.879; (3) an efficient algorithm for the synthesis of detection outputs across large-scale, high-resolution images; and (4) an I/O optimization resulting in faster inference time. Our methods drastically reduce the time required for palynomorph detection in a single slide from often days of manual inspection to under one hour of automated analysis, enabling palynological research at a substantially greater scale.

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