Using computer vision on herbarium specimen images to discriminate among closely related horsetails (Equisetum).

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2020-06

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Abstract

Premise:Equisetum is a distinctive vascular plant genus with 15 extant species worldwide. Species identification is complicated by morphological plasticity and frequent hybridization events, leading to a disproportionately high number of misidentified specimens. These may be correctly identified by applying appropriate computer vision tools. Methods:We hypothesize that aerial stem nodes can provide enough information to distinguish among Equisetum hyemale, E. laevigatum, and E . ×ferrissii, the latter being a hybrid between the other two. An object detector was trained to find nodes on a given image and to distinguish E. hyemale nodes from those of E. laevigatum. A classifier then took statistics from the detection results and classified the given image into one of the three taxa. Both detector and classifier were trained and tested on expert manually annotated images. Results:In our exploratory test set of 30 images, our detector/classifier combination identified all 10 E. laevigatum images correctly, as well as nine out of 10 E. hyemale images, and eight out of 10 E. ×ferrissii images, for a 90% classification accuracy. Discussion:Our results support the notion that computer vision may help with the identification of herbarium specimens once enough manual annotations become available.

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10.1002/aps3.11372

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Pryer, KM, C Tomasi, X Wang, EK Meineke and MD Windham (2020). Using computer vision on herbarium specimen images to discriminate among closely related horsetails (Equisetum). Applications in plant sciences, 8(6). p. e11372. 10.1002/aps3.11372 Retrieved from https://hdl.handle.net/10161/21728.

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Scholars@Duke

Pryer

Kathleen M. Pryer

Professor of Biology
Tomasi

Carlo Tomasi

Iris Einheuser Distinguished Professor

Tomasi's research is at the intersection of computer vision, machine learning, and applied mathematics. Tomasi's current projects include image motion analysis (funded by NSF), satellite image interpretation (funded by IARPA), computer-assisted diagnosis, and object recognition (funded by Amazon). He is an ACM Fellow and has won the IEEE Computer Society Helmholtz Prize twice.


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