smallrnaseq - tool for analysis of small RNA sequencing data

smallrnaseq is a Python package that integrates some of the standard approaches for convenient pre-processing, quantification and analysis of small RNAs. It includes a command line interface used in conjunction with a configuration file. Hence knowledge of Python is not a necessity for using this software. The aim is to provide convenience but with enough configuration to allow some flexibility. Supported on linux and OSX.

Functionality includes:


Up to date documentation is at

There is a video tutorial at


pip install smallrnaseq


snap install smallrnaseq

See the installation page for more details

Python Dependencies