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smallrnaseq is a Python package for processing of small RNA seq data. This is used to elucidate the small RNA contents of deep sequencing reads. For non Python users there is a command line interface that is quite simple to use. Typically a lot of disparate tools are integrated to create pipelines for this kind of analysis. This can be quite cumbersome. Our objective is to perform the analyses using Python packages as far as possible allowing almost all requirements to be installed using the pip tool. An aligner such as bowtie are still needed.

Python users may find the various modules useful in creating their own more flexible workflows. A functional approach is used with a flat hierarchy of modules with limited use of classes.

It is recommended to run this package on a linux system. See the Installation page

A screencast tutorial for using the command line interface: