Add metadata files for viewer functionality
#4
by
egrace479
- opened
- README.md +16 -3
- group_images/metadata.csv +0 -0
- individual_specimens/metadata.csv +0 -0
README.md
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@@ -27,6 +27,16 @@ task_categories:
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- image-segmentation
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- object-detection
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size_categories: 1K<n<10K
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description: "Collection of individual ground-beetle (Coleoptera: Carabidae) specimen images with corresponding trait annotations and measurements for all 14 distinct species. All specimens were collected by the U.S. National Ecological Observatory Network (NEON) at the Pu'u Maka'ala Natural Area Reserve on the Island of Hawai'i (the Big Island)."
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---
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@@ -40,9 +50,6 @@ Collection of ground beetle specimen images; specimens collected by the [U.S. Na
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- **Curated by:** S M Rayeed, Mridul Khurana, Alyson East, Samuel Stevens, Iuliia Zarubiieva, Jiaman (Lisa) Wu, Isadora E. Fluck, Scott C. Lowe, Elizabeth G. Campolongo, Evan D. Donoso, Tanya Berger-Wolf, Hilmar Lapp, Charles V Stewart, Graham W. Taylor, and Sydne Record
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- **Language(s):** English; Latin
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-
<!--
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- **Homepage:**
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-->
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- **Repository:** [Carabidae Beetle Processing](https://github.com/Imageomics/carabidae_beetle_processing)
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- **Paper:** [Coming Soon!]() <!-- Add arXiv link once up -->
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@@ -66,9 +73,11 @@ Each image is accompanied by trait annotations and measurements, providing valua
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group_images/
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IMG_<id>.png
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...
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individual_specimens/
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IMG_<id>_specimen_<number>_<taxonID>_<individualID>.png
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...
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images_metadata.csv
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trait_annotations.csv
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@@ -90,6 +99,8 @@ README.md
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- `ownerInstitutionCode`: NEON owner code (`NEON`).
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- `catalogNumber`: NEON catalog number (ex: `DP1.10022.001`).
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<br>
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**trait_annotations.csv**: Individual specimen annotation/measurement information. See Figure 1 in [Annotations](#annotations) for a visual representation of the annotation and measurement process.
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@@ -109,6 +120,8 @@ README.md
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- `cm_basal_pronotum_width`: Calibrated basal pronotal width in centimeters<sup>[2](#footnote2)</sup> at the elytro-pronotal suture, calculated by converting pixel measurements using the scalebar calibration factor.
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- `cm_elytra_max_width`: Calibrated maximum elytral width in centimeters<sup>[2](#footnote2)</sup>, representing the greatest transverse dimension across the fused elytra, calculated by converting pixel measurements using the scalebar calibration factor.
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<a name="footnote1">1</a>: The measurement is up to 14 decimal places.
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<a name="footnote2">2</a>: The measurement is up to 3 decimal places. To get measurements with more numerical precision (i.e. additional decimal places), use this equation: `cm_<measurement>` = `px_<measurement>`/`px_scalebar`.
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- image-segmentation
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- object-detection
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size_categories: 1K<n<10K
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configs:
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- config_name: group_images
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data_files:
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- "group_images/metadata.csv"
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- "group_images/*.png"
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- config_name: individual_specimens
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data_files:
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- "individual_specimens/metadata.csv"
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- "individual_specimens/*.png"
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default: true
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description: "Collection of individual ground-beetle (Coleoptera: Carabidae) specimen images with corresponding trait annotations and measurements for all 14 distinct species. All specimens were collected by the U.S. National Ecological Observatory Network (NEON) at the Pu'u Maka'ala Natural Area Reserve on the Island of Hawai'i (the Big Island)."
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---
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- **Curated by:** S M Rayeed, Mridul Khurana, Alyson East, Samuel Stevens, Iuliia Zarubiieva, Jiaman (Lisa) Wu, Isadora E. Fluck, Scott C. Lowe, Elizabeth G. Campolongo, Evan D. Donoso, Tanya Berger-Wolf, Hilmar Lapp, Charles V Stewart, Graham W. Taylor, and Sydne Record
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- **Language(s):** English; Latin
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- **Repository:** [Carabidae Beetle Processing](https://github.com/Imageomics/carabidae_beetle_processing)
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- **Paper:** [Coming Soon!]() <!-- Add arXiv link once up -->
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group_images/
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IMG_<id>.png
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...
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metadata.csv # For viewer functionality
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individual_specimens/
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IMG_<id>_specimen_<number>_<taxonID>_<individualID>.png
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...
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metadata.csv # For viewer functionality
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images_metadata.csv
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trait_annotations.csv
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- `ownerInstitutionCode`: NEON owner code (`NEON`).
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- `catalogNumber`: NEON catalog number (ex: `DP1.10022.001`).
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`group_images/metadata.csv` has the same columns with an additional `file_name` column containing the image name to allow for full dataset viewer functionality.
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<br>
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**trait_annotations.csv**: Individual specimen annotation/measurement information. See Figure 1 in [Annotations](#annotations) for a visual representation of the annotation and measurement process.
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- `cm_basal_pronotum_width`: Calibrated basal pronotal width in centimeters<sup>[2](#footnote2)</sup> at the elytro-pronotal suture, calculated by converting pixel measurements using the scalebar calibration factor.
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- `cm_elytra_max_width`: Calibrated maximum elytral width in centimeters<sup>[2](#footnote2)</sup>, representing the greatest transverse dimension across the fused elytra, calculated by converting pixel measurements using the scalebar calibration factor.
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+
`individual_specimens/metadata.csv` has the same columns with an additional `file_name` column containing the image name to allow for full dataset viewer functionality.
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<a name="footnote1">1</a>: The measurement is up to 14 decimal places.
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<a name="footnote2">2</a>: The measurement is up to 3 decimal places. To get measurements with more numerical precision (i.e. additional decimal places), use this equation: `cm_<measurement>` = `px_<measurement>`/`px_scalebar`.
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group_images/metadata.csv
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The diff for this file is too large to render.
See raw diff
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individual_specimens/metadata.csv
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The diff for this file is too large to render.
See raw diff
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