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Robust DNA Isolation and High-throughput Sequencing Library Construction for Herbarium Specimens
Published on: March 8, 2018
The Herbarium 2021 Half-Earth Challenge Dataset and Machine Learning Competition.
Riccardo de Lutio1, John Y Park2, Kimberly A Watson2
1EcoVision Lab, Department of Civil, Environmental and Geomatic Engineering, ETH Zürich, Zurich, Switzerland.
Researchers created the Herbarium 2021 Half-Earth dataset, the largest and most diverse collection of herbarium specimen images for automatic plant identification. This resource aims to advance botanical research and biodiversity studies.
Area of Science:
- Botany
- Biodiversity Informatics
- Computer Vision
Background:
- Herbarium sheets are crucial for understanding botanical history, evolution, and biodiversity.
- Digitization of herbaria and advances in fine-grained visual classification offer opportunities for botanical research.
- Existing datasets for automatic taxon recognition are limited in size and diversity.
Purpose of the Study:
- To introduce a large-scale, diverse dataset for automatic taxon recognition from herbarium specimens.
- To facilitate research in botanical identification and biodiversity informatics.
- To encourage the development of advanced machine learning models for analyzing herbarium data.
Main Methods:
- Development of the Herbarium 2021 Half-Earth dataset, comprising diverse herbarium specimen images.
- Aggregation and alignment of taxa names to a common reference.
- Hosting the Herbarium 2021 Half-Earth challenge to spur model development.
Main Results:
- The Herbarium 2021 Half-Earth dataset is the largest and most diverse to date for automatic taxon recognition.
- The challenge successfully encouraged the development of models for identifying taxa from herbarium images.
- The dataset and challenge address limitations of previous resources in size and diversity.
Conclusions:
- The Herbarium 2021 Half-Earth dataset is a significant resource for advancing automated plant identification.
- This initiative supports broader research in botany, evolution, and biodiversity.
- Further development in fine-grained visual classification is crucial for herbaria digitization efforts.
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