Dataset Card for Bacterial Morphology Classification Dataset

Dataset Summary

This dataset contains images of bacteria categorized into three morphological classes: cocci, bacilli, and spirilla. It is designed for training, validating, and testing machine learning models for bacterial morphology classification.

Dataset Details

Dataset Description

This dataset was created to support research in microbiology and machine learning, focusing on bacterial morphology classification. Images in the dataset are labeled into three classes: cocci, bacilli, and spirilla.

Dataset Title: Bacterial Morphology Classification
Dataset Curator: Yola Charara, University of Michigan-Flint, M.S Data Science-Student
Dataset Version: The data was collected from September 28, 2024 till October 1, 2024.
Data Card Author: Yola Charara, University of Michigan-Flint, M.S Data Science-Student
Data Card Version: December 6, 2024
License: CC BY 4.0

Uses

Direct Use

The dataset is intended for training and evaluating machine learning models to classify bacteria by morphology, supporting tasks in microbiology and biomedical research.

Out-of-Scope Use

The dataset is not suitable for applications outside bacterial morphology classification. Misuse could include attempts to infer specific bacterial species or other unrelated properties.

Dataset Structure

The dataset is divided into training, validation, and test sets. Images in the training and validation sets are grouped by class, while the test set contains images without class-based folders.

Dataset Creation

Curation Rationale

The dataset was created to facilitate automated bacterial classification, reducing reliance on manual microscopy analysis and accelerating research workflows.

Source Data

Data Collection and Processing

Images were curated from the python library bing-downloader which downloads a bulk of images from bing images. Preprocessing included resizing, normalizing, and re-saving all .jpg images in RGB mode to ensure compatibility and resolve encoding issues.

Who are the source data producers?

The images were sourced from microbiological research or publicly available datasets. Specific data producers are not disclosed.

Annotations

Annotation process

Each image was labeled based on its morphological class by graduate students.

Personal and Sensitive Information

The dataset does not contain any personal or sensitive information.

Bias, Risks, and Limitations

The dataset is limited to three morphological classes and may not generalize well to other bacterial shapes or conditions. There may be inherent biases in the dataset depending on the sources of the images.

Recommendations

Users should test models on other datasets to ensure generalizability and reduce bias, as this dataset may not cover all variations. Additional data from diverse sources is recommended to improve model robustness.

Glossary

Cocci: Round-shaped bacteria.
Bacilli: Rod-shaped bacteria.
Spirilla: Spiral-shaped bacteria.

More Information

Codalab link for this dataset: https://codalab.lisn.upsaclay.fr/competitions/20680?secret_key=b04da988-294a-4491-831c-3f4b55529a0b

Dataset Card Contact

email: yolac@umich.edu

Datasets:

yolac
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BacterialMorphologyClassification