Pegasus
Pegasus is a python package that takes gene-count matrices as input and performs a wide range of analyses, such as –
- Quality control;
- Highly variable gene selection;
- Batch correction;
- Principal component analysis (PCA);
- k-nearest neighbor (kNN) graph construction;
- Diffusion map;
- Community-graph based clustering;
- Visualization on t-SNE, UMAP, and force-directed layout (FLE) embeddings;
- Differential expression, cluster-specific marker detection;
- Marker-based cell type annotation.
Click here to read Pegasus documentation.
Pegasus is released on PyPI as a Python package.
Publications:
Bo Li
Assistant Professor of Medicine and Director of Bioinformatics and Computational Biology Program
Dr. Li’s research focuses on developing reliable computational tools to empower novel analyses of various Next-Generation Sequencing (NGS) data, and in particular, single-cell genomics data.
