cafe-release 0.1.3

CellFateExplorer (Cafe) - An integrated platform for exploring cell fate

Cafe: An integrated platform for exploring cell fate

Cafe (Cellular Fate Explorer) is an integration platform for inferring, visualizing and benchmarking cell fate trajectory for single-cell RNA-seq data.😁

Framework

Installation

See here

Quick Start

You can run the quickstart.ipynb using jupyter noboker to learn the basic function of tools quickly.

Project shedule

• Main framework code
• Document construction: intsruction, tutorial, API
• 🔗Data module: FateAnnData data structure, data collection.
• 🔗Methods module: 4 backend, trajectory methods for 8 wrapper.
• 🔗Benchmark: comprehensive metric and benchmark.
• 🔗Plot: beautiful plot.
• 🔗Downstream analysis module: Interactive web platform, driver gene and GRN.

Document

1. Links: For User, for Developer

2. If you want to build the docs locally, run the following command in now conda environment.

   pip install -r docs/requirements.txt
   mkdocs serve