aind-segmentation-evaluation 0.0.27

Python package for evaluating neuron segmentations in terms of the number of splits and merges

aind-segmentation-evaluation

Python package for performing a skeleton-based evaluation of a predicted segmentation of neuron axons. Given a predicted segmentation and ground truth skeleton, the evaluation is performed by detecting splits and merges in the prediction and then several statistics are computed from these quantities.

Installation

To use the software, in the root directory, run

pip install -e .

To develop the code, run

pip install -e .[dev]

To install this package from PyPI, run

pip install aind-segmentation-evaluation

Pull requests

For internal members, please create a branch. For external members, please fork the repository and open a pull request from the fork. We'll primarily use Angular style for commit messages. Roughly, they should follow the pattern:

<type>(<scope>): <short summary>

where scope (optional) describes the packages affected by the code changes and type (mandatory) is one of:

• build: Changes that affect build tools or external dependencies (example scopes: pyproject.toml, setup.py)
• ci: Changes to our CI configuration files and scripts (examples: .github/workflows/ci.yml)
• docs: Documentation only changes
• feat: A new feature
• fix: A bugfix
• perf: A code change that improves performance
• refactor: A code change that neither fixes a bug nor adds a feature
• test: Adding missing tests or correcting existing tests