egrace479 commited on
Commit
7976689
·
verified ·
1 Parent(s): 2e06959

fix documented subset name

Browse files

correct in configs and dataset structure, was simply mis-referenced

Files changed (1) hide show
  1. README.md +3 -3
README.md CHANGED
@@ -27,7 +27,7 @@ configs:
27
  data_files:
28
  - "group_images/metadata.csv"
29
  - "group_images/*.jpg"
30
- - config_name: resized_group_images
31
  data_files:
32
  - "group_images_resized/metadata.csv"
33
  - "group_images_resized/*.jpg"
@@ -80,7 +80,7 @@ The individual images were segmented out based on scaling the elytra measurement
80
  This dataset has 4 subsets, which are described in greater detail below in [Data Instances](#data-instances):
81
 
82
  1. `group_images`: all 577 orignal full size images.
83
- 2. `resized_group_images`: all 577 resized (approximately 1MB) group images used for annotation in Notes from Nature (1MB was the size limitation imposed by the software); aspect ratio was maintained in the resize.
84
  3. `individual_specimens`: all 11,654 individuals from the `group_images`, segmented _manually_ to have one image per individual.
85
  4. `separate segmented splits`: 7,070 individual beetle images segmented from the `group_images` as part of [BeetlePalooza 2024](https://doi.org/10.5281/zenodo.15540300). These images were organized into an 80-20 train-test split and are in the `Separate_segmented_train_test_splits_80_20/` directory.
86
 
@@ -128,7 +128,7 @@ This dataset has 4 subsets, which are described in greater detail below in [Data
128
  This dataset has 4 subsets:
129
 
130
  1. `group_images`: 577 images of multiple beetles in a reasonably regular pattern (see sample image below). Each of these images contains a centimeter-based scalebar and a barcode representing the sample (collection of beetles in the image). Each row in `BeetleMeasurements.csv` corresponds to a measurement of the elytra (length or width) of an individual beetle.
131
- 2. `resized_group_images`: All 577 `group_images` resized to the dimensions required for Notes from Nature annotation. These resized images align with the individual measurements provided in `BeetleMeasurements.csv`, unlike the images in the `group_images` subset, which require conversion that the pixel locations are converted to match the full size images.
132
  3. `individual_specimens`: 11,654 manually segmented images of all individual specimens photographed in the `group_images` subset. These images are split between two folders (`part_000/` and `part_001/`), and are labeled based on the group image to which they belong (`pictureID`), then the associated specimen when labeling within the tray from left to right, top to bottom (as if reading a book). Metadata for these images can be aligned using the `individual_specimens/metadata.csv`.
133
  4. `separate segmented splits`: 7,070 individual beetle images segmented from the `group_images`. This subset encompasses 11 different species of beetles. There are 12 folders, but _melanarius melanarius_ is a subspecies designation for _melanarius_, so it should not be considered a species distinction. These images are divided into an 80-20 train-test split, and further separated into subfolders based on their species (as shown below). These images are all contained in the `Separate_segmented_train_test_splits_80_20/` directory, and were generated as part of [BeetlePalooza 2024](https://doi.org/10.5281/zenodo.15540300). See [`Separate_segmented_train_test_splits_80_20/README`](Separate_segmented_train_test_splits_80_20/README.md) for more details.
134
  - The code used to produce the images and splits in `Separate_segmented_train_test_splits_80_20/` is provided [here](https://github.com/Imageomics/2018-NEON-beetles-processing/blob/main/notebooks/Beetle_Palooza_image_separation.ipynb).
 
27
  data_files:
28
  - "group_images/metadata.csv"
29
  - "group_images/*.jpg"
30
+ - config_name: group_images_resized
31
  data_files:
32
  - "group_images_resized/metadata.csv"
33
  - "group_images_resized/*.jpg"
 
80
  This dataset has 4 subsets, which are described in greater detail below in [Data Instances](#data-instances):
81
 
82
  1. `group_images`: all 577 orignal full size images.
83
+ 2. `group_images_resized`: all 577 resized (approximately 1MB) group images used for annotation in Notes from Nature (1MB was the size limitation imposed by the software); aspect ratio was maintained in the resize.
84
  3. `individual_specimens`: all 11,654 individuals from the `group_images`, segmented _manually_ to have one image per individual.
85
  4. `separate segmented splits`: 7,070 individual beetle images segmented from the `group_images` as part of [BeetlePalooza 2024](https://doi.org/10.5281/zenodo.15540300). These images were organized into an 80-20 train-test split and are in the `Separate_segmented_train_test_splits_80_20/` directory.
86
 
 
128
  This dataset has 4 subsets:
129
 
130
  1. `group_images`: 577 images of multiple beetles in a reasonably regular pattern (see sample image below). Each of these images contains a centimeter-based scalebar and a barcode representing the sample (collection of beetles in the image). Each row in `BeetleMeasurements.csv` corresponds to a measurement of the elytra (length or width) of an individual beetle.
131
+ 2. `group_images_resized`: All 577 `group_images` resized to the dimensions required for Notes from Nature annotation. These resized images align with the individual measurements provided in `BeetleMeasurements.csv`, unlike the images in the `group_images` subset, which require conversion that the pixel locations are converted to match the full size images.
132
  3. `individual_specimens`: 11,654 manually segmented images of all individual specimens photographed in the `group_images` subset. These images are split between two folders (`part_000/` and `part_001/`), and are labeled based on the group image to which they belong (`pictureID`), then the associated specimen when labeling within the tray from left to right, top to bottom (as if reading a book). Metadata for these images can be aligned using the `individual_specimens/metadata.csv`.
133
  4. `separate segmented splits`: 7,070 individual beetle images segmented from the `group_images`. This subset encompasses 11 different species of beetles. There are 12 folders, but _melanarius melanarius_ is a subspecies designation for _melanarius_, so it should not be considered a species distinction. These images are divided into an 80-20 train-test split, and further separated into subfolders based on their species (as shown below). These images are all contained in the `Separate_segmented_train_test_splits_80_20/` directory, and were generated as part of [BeetlePalooza 2024](https://doi.org/10.5281/zenodo.15540300). See [`Separate_segmented_train_test_splits_80_20/README`](Separate_segmented_train_test_splits_80_20/README.md) for more details.
134
  - The code used to produce the images and splits in `Separate_segmented_train_test_splits_80_20/` is provided [here](https://github.com/Imageomics/2018-NEON-beetles-processing/blob/main/notebooks/Beetle_Palooza_image_separation.ipynb).