Add description for two files not previously described
Browse files
README.md
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@@ -128,8 +128,10 @@ images, and images that have labels.
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- `catalog-v1-dev.csv`: the metadata and identifiers for all images in the dataset. This includes original data source, unique identifier within TreeOfLife10M, and the associated taxa information for the image. This file will be maintained for v1 reference, and as such will not be updated.
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- `taxa_counts.csv`: count of distinct lower taxa within each higher taxon from `kingdom` down to
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`genus` in `catalog-v1-dev.csv`, though the genus count was interrupted and therefore is incomplete.
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- `avg_std_byClass.csv`: average and standard distribution of images in `catalog-v1-dev.csv` given by class (taxonomic rank). This is for both all images, and images that have labels. Note that kingdoms had not been merged and no standardization was performed on the taxonomic hierarchy prior to creation of this file.
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- `tol_hierarchy_test.csv`: Subset of `catalog-v1-dev.csv` for testing the [`check_taxa` script](https://github.com/Imageomics/bioclip/blob/main/scripts/evobio10m/check_taxa.py) to ensure the hierarchy is properly filled in after data generation.
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#### Taxa Files
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| 128 |
- `catalog-v1-dev.csv`: the metadata and identifiers for all images in the dataset. This includes original data source, unique identifier within TreeOfLife10M, and the associated taxa information for the image. This file will be maintained for v1 reference, and as such will not be updated.
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- `taxa_counts.csv`: count of distinct lower taxa within each higher taxon from `kingdom` down to
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| 130 |
`genus` in `catalog-v1-dev.csv`, though the genus count was interrupted and therefore is incomplete.
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- `missing_taxa_output.txt`: output from the [check taxa script](https://github.com/Imageomics/bioclip/blob/main/scripts/evobio10m/check_taxa.py), record of versions of catalog checked are indicated before the printout (text was copied from the terminal).
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- `avg_std_byClass.csv`: average and standard distribution of images in `catalog-v1-dev.csv` given by class (taxonomic rank). This is for both all images, and images that have labels. Note that kingdoms had not been merged and no standardization was performed on the taxonomic hierarchy prior to creation of this file.
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- `tol_hierarchy_test.csv`: Subset of `catalog-v1-dev.csv` for testing the [`check_taxa` script](https://github.com/Imageomics/bioclip/blob/main/scripts/evobio10m/check_taxa.py) to ensure the hierarchy is properly filled in after data generation.
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- `licenses.csv`: licensing information for all images in the catalog. This should match the published [licenses.csv](https://huggingface.co/datasets/imageomics/TreeOfLife-10M/blob/main/metadata/licenses.csv) (SHA256 match), described in the [metadata section of the TreeOfLife-10M Dataset Card](https://huggingface.co/datasets/imageomics/TreeOfLife-10M#metadata-files).
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#### Taxa Files
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