scsilhouette Documentation

Silhouette score analysis for single-cell clustering quality control.

API Reference:

scsilhouette
- scsilhouette package

Installation

pip install scsilhouette

Quick Start

scsilhouette compute-silhouette \
    --h5ad-path data.h5ad \
    --cluster-header "cell_type" \
    --embedding-key "X_umap" \
    --organ "kidney" \
    --first-author "Lake" \
    --year "2023"

Indices and tables