SNAPR: a bioinformatics pipeline for efficient and accurate RNA-seq alignment and analysis
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README.md

SNAPR

Scalable Nucleotide Alignment Program RNA-seq - http://price.systemsbiology.net/SNAPR

Overview

We present SNAPR, a new method for RNA-seq analysis, optimized for hundreds or even thousands of RNA-seq libraries. SNAPR reads from and writes to BAM format, automatically generates read counts, and accurately identifies viral/bacterial infections and gene fusions.

Documentation

A quick start guide and user manual are available in the docs folder, with additional documentation at http://price.systemsbiology.net/SNAPR.

Building

SNAPR runs on Windows, Linux and Mac OS X.

For Windows, we provide a Visual C++ project, snap.sln. Requirements:

  • Visual Studio 2012 (11.0)

For Linux and OS X, simply type make. Requirements: