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Canu

.. toctree::
   :hidden:

   quick-start
   faq
   tutorial
   pipeline
   parameter-reference
   command-reference
   history


Canu is a fork of the Celera Assembler designed for high-noise single-molecule sequencing (such as the PacBio RSII or Oxford Nanopore MinION).

Publication

Koren S, Walenz BP, Berlin K, Miller JR, Phillippy AM. Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation. Genome Research. (2017).

Install

The easiest way to get started is to download a release. If you encounter any issues, please report them using the github issues page.

Alternatively, you can also build the latest unreleased from github:

git clone https://github.com/marbl/canu.git
cd canu/src
make -j <number of threads>

Learn