Page tree

Versions Compared


  • This line was added.
  • This line was removed.
  • Formatting was changed.

Flexible, multi-reference software for pre- and post-alignment analysis of nanopore sequencing data, quality and error profiles

NanoOK (pronounced na-nook) is a tool for extraction, alignment and analysis of Nanopore reads. NanoOK will extract reads as FASTA or FASTQ files, align them (with a choice of alignment tools), then generate a comprehensive multi-page PDF report containing yield, accuracy and quality analysis. Along the way, it generates plain text files which can be used for further analysis, as well as graphs suitable for inclusion in presentations and papers.

NanoOK has a number of dependencies - Perl, LaTeX, R and an alignment tool - which means it works best on Linux and Mac OS platforms. 

Further information:

Talks and posters:


If you would like to be on a NanoOK mailing list to receive information about updates, please email


Up-to-date documentation has moved to


Search this documentation