Getting Started

FragPipe Limited-Proteolysis Processor (FLiPPR) is a modular, fast, and easy-to-use data processing tool for LiP-MS and LFQ-based experiments analyzed with FragPipe. It supports differential analysis and label-free quantification workflows and is designed to work with FragPipe output directories.

Quick start

For a minimal, runnable example and installation instructions, see the Quickstart page.

Configuration

Global configuration values are available in the rcParams dictionary; see rcParams and configuration for details and examples.

API & examples

Browse the API Reference reference for the public classes and helpers, and the Examples & Use Cases page for common use cases.

Install

Install FLiPPR from source into a recent Python environment (see pyproject.toml for the required Python version):

uv sync

Install the published package into an existing environment:

uv pip install flippr