metadata

task_categories:
  - image-classification
  - image-segmentation
tags:
  - fish
  - traits
  - processed
  - RGB
pretty_name: Fish-Vista
size_categories:
  - 10K<n<100K
language:
  - en
configs:
  - config_name: classification_fv_419
    data_files:
      - split: train
        path: classification_train.csv
      - split: test
        path: classification_test.csv
      - split: val
        path: classification_val.csv
  - config_name: identification_fv_682
    data_files:
      - split: train
        path: identification_train.csv
      - split: test_insp
        path: identification_test_insp.csv
      - split: test_lvsp
        path: identification_test_lvsp.csv
      - split: val
        path: identification_val.csv
  - config_name: segmentation_fv_1200
    data_files:
      - split: all
        path: segmentation_data.csv

Dataset Card for Heliconius Collection (Cambridge Butterfly)

Dataset Description

Dataset Summary

the Fish-Visual Trait Analysis (Fish-Vista) dataset—a large, annotated collection of 60K fish images spanning 1900 different species, supporting several challenging and biologically relevant tasks including species classification, trait identification, and trait segmentation. These images have been curated through a sophisticated data processing pipeline applied to a cumulative set of images obtained from various museum collections. Fish-Vista provides fine-grained labels of various visual traits present in each image. It also offers pixel-level annotations of 9 different traits for 2427 fish images, facilitating additional trait segmentation and localization tasks.

The Fish Vista dataset consists of museum fish images from (GLIN), IDigBio, Morphbank databases. We acquired these images, along with associated metadata including the scientific species names, the taxonomical family the species belong to, and licensing information, from the FishAIR repository.

Languages

English

Dataset Structure

classification_train.csv: Information for the approximately x image files.
classification_test.csv: Information for the approximately x image files.
classification_val.csv: Information for the approximately x image files.
identification_train.csv: Information for the approximately x image files.
identification_test_insp.csv: Information for the approximately x image files.
identification_test_lvsp.csv: Information for the approximately x image files.
identification_val.csv: Information for the approximately x image files.
segmentation_data.csv: Information for the approximately x image files.

Notes:

Data Instances

Type: JPG
Size (x pixels by y pixels): Variable
Background (color or none): Uniform (White)

Preprocessing steps:

Data Fields

CSV Columns are as follows:

filename: Unique filename for our processed images.
source_filename: Filename of the source image. Non-unique, since one source filename can result in multiple crops in our processed dataset.
original_format: Original format, all jpg/jpeg.
arkid: ARKID from FishAIR for the original images. Non-unique, since one source file can result in multiple crops in our processed dataset.
verbatim_species: Verbatim species label from FishAIR. This is not the name-resolved species name.
species: Scientific species name from FishAIR. This is not the name-resolved species name.
family: Taxonomic family
source: Source museum collection. GLIN, Idigbio or Morphbank
owner: Owner institution within the source collection.
standardized_species: Open-tree-taxonomy-resolved species name. This is the species name that we provide for Fish-Vista
original_url: URL to download the original, unprocessed image
license: License information for the original image
adipose_fin: Presence/absence of the adipose fin trait. 1 indicates presence and 0 indicates absence. This is used for trait identification.
pelvic_fin: Presence/absence of the pelvic trait. 1 indicates presence and 0 indicates absence. This is used for trait identification.
barbel: Presence/absence of the barbel trait. 1 indicates presence and 0 indicates absence. This is used for trait identification.
multiple_dorsal_fin: Presence/absence of the barbel trait. 1 indicates presence, 0 indicates absence and -1 indicates unknown. This is used for trait identification.

Note:

Dataset Creation

Curation Rationale

Source Data

Initial Data Collection and Annotation

Personal and Sensitive Information

None

Considerations for Using the Data

Discussion of Biases and Other Known Limitations

This dataset is imbalanced.
There are multiple images of the same specimen for many specimens; sometimes this is due to different views (eg., dorsal or ventral side)
- The master files contain only images that were determined to be unique (at the pixel level) through MD5 checksum.

Additional Information

Dataset Curators

Original Images:

This Collection:

Licensing Information

Citation Information

Contributions

The Imageomics Institute is funded by the US National Science Foundation's Harnessing the Data Revolution (HDR) program under Award #2118240 (Imageomics: A New Frontier of Biological Information Powered by Knowledge-Guided Machine Learning). Any opinions, findings and conclusions or recommendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation.