{"repo":"vitessce/vitessce-python","free":true,"listed":false,"github":"https://github.com/vitessce/vitessce-python","clone":"git clone https://github.com/vitessce/vitessce-python.git","description":"Python API and Jupyter widget for Vitessce","language":"Python","stars":67,"topics":["single-cell","kharchenkolab","data-visualization","vitessce","ipywidget","jupyter-widget","jupyterlab-extension","hidivelab"],"license":"MIT","category":"analytics","readme_excerpt":"vitessce-python Python API and Jupyter widget facilitating interactive visualization of spatial single-cell data with Vitessce. Installation To install with pip: $ pip install 'vitessce[all]' Getting started Explore our example notebooks. These contain demos of different use cases and integrations with single-cell data analysis packages. Development For a development installation (requires NodeJS and NPM), $ git clone https://github.com/vitessce/vitessce-python.git $ cd vitessce-python $ uv sync --extra dev --extra docs --extra all Alternatively, use conda: $ conda create -n vitessce-dev python=3.12 $ conda activate vitessce-dev $ pip install -e \".[dev,docs,all]\" Troubleshooting SpatialQuery installation on macOS: $ # Use the macOS clang instead of from homebrew. $ CC=/usr/bin/clang CXX=/usr/bin/clang++ pip install -e \".[dev,docs,all,sq]\" Linting and testing Formatting One file: All .py files: Documentation Deployment To deploy a new version, increment the version of the Python package in pyproject.toml . Then, when you push or merge the code with the incremented versions to main , the GitHub Action deploy.yml workflow will build and push the package to PyPI. Troubleshooting Check JavaScript console Check the JavaScript console in the web browser for error messages. To do so, shift+right click in Jupyter, then click Inspect element. You may need to enable your browser's develop mode in its preferences for this option to appear when you right-click. Check your Python environme","default_branch":null,"files":null,"tree":[],"storefront":"/r/vitessce","claimed":false,"request_supported":{"post":"https://gitbuyer.com/r/vitessce/vitessce-python/request-supported","requests":0},"note":"indexed from public GitHub; nothing is for sale on this page. Clone it from GitHub. Paid listings live at /search."}