Datasets:
Update README with full feature descriptions.
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README.md
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# Dataset Card for Curated Gold Standard Cuthill Dataset
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## Dataset Description
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Dorsal full body images of subspecies of
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960 images with 320 specimens, each photographed in RGB with bird and butterfly acuity included (3 images of each specimen).
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Subset of images processed from Cuthill
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**Note:** `dorsal_images_cuthill` contains processed dorsal images from the original Cuthill dataset (all 1,234 specimens).
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### Supported Tasks and Leaderboards
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### Languages
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* Background: [210, 210, 210] (gray)
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* Fit in frame: Most padding is above and below the image, some on the left and right.
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* Ruler or Scale: None
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* Color (ColorChecker, white-balance, None): None
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### Data Fields
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* `Subspecies`: subspecies of the specimen
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* `Sex`: sex of the specimen (male or female)
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* `addit_taxa_info`: additional taxonomic information (subspecies)
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* `type_stat`:
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* `hybrid_stat`: hybrid status ('valid subspecies', 'subspecies synonym' or 'unknown' (only 1))
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* `in_reduced`:
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* `locality`: where specimen was collected
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* `lat`: latitude where specimen was collected
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* `lon`: longitude where specimen was collected
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* `speciesdesig`: species designation, first initial of species '.' subspecies (eg., 'm. rosina')
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`Train_Test_Curated_GoldStandard_Hoyal_Cuthill.csv` has three additional columns:
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* `Image_filename_png`: filename of (png) image of specimen, `dorsal_images_cuthill
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* `subset`: whether this is part of the training or test set (`train` or `test`)
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* `filepath`: the filepath for the train or test image
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### Curation Rationale
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This dataset was curated for training a model to classify different species of Heliconius Butterflies and to take into account mimicry between species and acuity of the observer (bird, butterfly, or human/other).
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The original data (Cuthill et al 2019) had misclassified species/subspecies and some locality/ collection sites were outside the known range of the butterflies.
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It also contained hybrid and aberrant samples, that had the potential to muddle classification results.
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To prevent this, the data was further refined by several Heliconius experts to remove hybrid and aberrant samples.
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Lastly, bird and butterfly acuities were added to provide another level of analysis.
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### Source Data
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Cuthill
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#### Initial Data Collection and Normalization
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[More Information Needed]
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Photographers: Robyn Crowther and Sophie Ledger, Natural History Museum, London.
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#### Who are the source language producers?
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#### Annotation process
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The original data has some misclassified species/subspecies, and had multiple hybrid samples. These samples were removed by hand by
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Some localities were outside the known range of the butterflies, and were removed using QGIS and known
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#### Who are the annotators?
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Christopher Lawrence
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Jim Mallet
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Owen McMilan
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### Personal and Sensitive Information
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### Discussion of Biases
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Biased towards species and subspecies within Heliconius. Focused on
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### Other Known Limitations
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### Licensing Information
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[
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### Citation Information
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Please also cite the original dataset from which this was adapted and its accompanying paper:
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* Hoyal Cuthill, Jennifer F. et al. (2019), Data from: Deep learning on butterfly phenotypes tests evolution’s oldest mathematical model, Dryad, Dataset, https://doi.org/10.5061/dryad.2hp1978.
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* Hoyal Cuthill, Jennifer F. et al. (2019), Deep learning on butterfly phenotypes tests evolution’s oldest mathematical model, Science Advances, Article-journal, https://doi.org/10.1126/sciadv.aaw4967
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### Contributions
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The [Imageomics Institute](https://imageomics.org) is funded by the US National Science Foundation's Harnessing the Data Revolution (HDR) Institute program under [Award #2118240](https://www.nsf.gov/awardsearch/showAward?AWD_ID=2118240) (Imageomics: A New Frontier of Biological Information Powered by Knowledge-Guided Machine Learning).
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# Dataset Card for Curated Gold Standard Cuthill Dataset
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## Dataset Description
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Dorsal full body images of subspecies of _Heliconius erato_ and _Heliconius melpomene_ (18 subspecies total).
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960 images with 320 specimens, each photographed in RGB with bird and butterfly acuity included (3 images of each specimen).
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Subset of images processed from Cuthill et al. dataset available at [doi:10.5061/dryad.2hp1978](https://doi.org/10.5061/dryad.2hp1978).
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**Note:** `dorsal_images_cuthill` contains processed dorsal images from the original Cuthill dataset (all 1,234 specimens).
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### Supported Tasks and Leaderboards
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_Heliconius erato_ and _Heliconius melpomene_ subspecies identification (image classification), with variable settings for acuity of the observer (bird, butterfly, or human/other).
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### Languages
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* Background: [210, 210, 210] (gray)
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* Fit in frame: Most padding is above and below the image, some on the left and right.
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* Ruler or Scale: None
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* Color Reference (ColorChecker, white-balance, None): None
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### Data Fields
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* `Subspecies`: subspecies of the specimen
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* `Sex`: sex of the specimen (male or female)
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* `addit_taxa_info`: additional taxonomic information (subspecies)
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* `type_stat`: indicates "classical" or "example" specimen of species or subspecies ('ST', 'PT', or 'HT', indicating syntypes, paratypes, or holotypes, respectively). This field is mostly null.
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* `hybrid_stat`: hybrid status ('valid subspecies', 'subspecies synonym' or 'unknown' (only 1))
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* `in_reduced`: whether or not the specimen was used in the second analysis by Cuthill et al. (1 or 0 to indicate yes or no, respectively). This was an effort to remove potential hybrids from their analysis; it does not always match our indication of hybrid status.
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* `locality`: where specimen was collected
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* `lat`: latitude where specimen was collected
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* `lon`: longitude where specimen was collected
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* `speciesdesig`: species designation, first initial of species '.' subspecies (eg., 'm. rosina')
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`Train_Test_Curated_GoldStandard_Hoyal_Cuthill.csv` has three additional columns:
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* `Image_filename_png`: filename of (png) image of specimen, `dorsal_images_cuthill/ + <Image_filename_png>` is the filepath for the processed dorsal image
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* `subset`: whether this is part of the training or test set (`train` or `test`)
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* `filepath`: the filepath for the train or test image
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### Curation Rationale
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This dataset was curated for training a model to classify different species of Heliconius Butterflies and to take into account mimicry between species and acuity of the observer (bird, butterfly, or human/other).
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The original data (Cuthill et al. 2019) had misclassified species/subspecies and some locality/ collection sites were outside the known range of the butterflies.
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It also contained hybrid and aberrant samples, that had the potential to muddle classification results.
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To prevent this, the data was further refined by several Heliconius experts to remove hybrid and aberrant samples.
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Lastly, bird and butterfly acuities were added to provide another level of analysis.
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### Source Data
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Cuthill et al. [doi:10.5061/dryad.2hp1978](https://doi.org/10.5061/dryad.2hp1978).
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#### Initial Data Collection and Normalization
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Photographers: Robyn Crowther and Sophie Ledger, Natural History Museum, London.
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#### Who are the source language producers?
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#### Annotation process
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The original data has some misclassified species/subspecies, and had multiple hybrid samples. These samples were removed by hand by Owen McMilan, Christopher Lawrence, Jim Mallet, Krzysztof Kozak.
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Some localities were outside the known range of the butterflies, and were removed using QGIS and known subspecies ranges.
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#### Who are the annotators?
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Christopher Lawrence,
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Jim Mallet,
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Owen McMilan, and
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Krzysztof Kozak.
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### Personal and Sensitive Information
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### Discussion of Biases
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Biased towards species and subspecies within Heliconius. Focused on _Heliconius erato_ and _Heliconius melpomene_.
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### Other Known Limitations
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### Licensing Information
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This work has been marked as dedicated to the public domain by applying the [CC0 Public Domain Waiver](https://creativecommons.org/publicdomain/zero/1.0/).
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### Citation Information
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Please also cite the original dataset from which this was adapted and its accompanying paper:
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* Hoyal Cuthill, Jennifer F. et al. (2019), Data from: Deep learning on butterfly phenotypes tests evolution’s oldest mathematical model, Dryad, Dataset, https://doi.org/10.5061/dryad.2hp1978.
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* Hoyal Cuthill, Jennifer F. et al. (2019), Deep learning on butterfly phenotypes tests evolution’s oldest mathematical model, Science Advances, Article-journal, https://doi.org/10.1126/sciadv.aaw4967.
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### Contributions
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The [Imageomics Institute](https://imageomics.org) is funded by the US National Science Foundation's Harnessing the Data Revolution (HDR) Institute program under [Award #2118240](https://www.nsf.gov/awardsearch/showAward?AWD_ID=2118240) (Imageomics: A New Frontier of Biological Information Powered by Knowledge-Guided Machine Learning).
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