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RNFtools manual

This is the manual of RNFtools which is an associate software package for Read Naming Format (RNF), a generic format for naming simulated Next-Generation Sequencing reads.

RNFtools can be used for simulation of NGS reads, evaluation of mappers, and conversion of RNF-compliant data.

Publication

  1. Břinda, V. Boeva, G. Kucherov. RNF: a general framework to evaluate NGS read mappers. Bioinformatics 32(1), pp. 136-139, 2016. [doi:10.1093/bioinformatics/btv524]

Links

Project webpage - RNF specification - GitHub repository - Bug reporting - Mailing list - Contact

Table of contents

:ref:`introduction`
Introduction to RNFtools.
:ref:`tutorial`
Tutorials demonstrating installation and basic usage of RNFtools.
:ref:`reference`
Automatically generated documentation for RNFtools (including CLI variant rnftools).
:ref:`other_information`
FAQs, supplementary information about RNFtools, information about state-of-the-art read simulators.
.. toctree::
        :maxdepth: 2
        :hidden:
        :numbered:

        getting_started
        tutorial
        reference
        other_information