NanoPrePro Documentation

NanoPrePro is a pre-processor for Oxford Nanopore transcriptomic sequencing data.

Contents:

• Installation
  • Option 1: run with Docker
  • Option 2: use pip install
• Implementation
  • Quick start
  • Pre-processing pipeline
• Output
  • Processed FASTQ
  • HTML report

Citation

If you use NanoPrePro in your research, please cite:

Chu C, Yu J, Kuo S, Yang F, Lin C, Chen C, Wu Y, Shih C, Sun Y, Mai T, Chen Y, Lin H, Su J, Lin Y (2025). NanoPrePro: a fully-equipped, fast, and memory-efficient pre-processor for Nanopore transcriptomic sequencing.

(Preprint / Journal reference here when available.)