.. mash documentation master file, created by
   sphinx-quickstart on Fri May  8 14:15:00 2015.
   You can adapt this file completely to your liking, but it should at least
   contain the root `toctree` directive.

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.. image:: logo_med.png

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Fast genome and metagenome distance estimation using MinHash

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Publications
============
`Mash: fast genome and metagenome distance estimation using MinHash. Ondov BD, Treangen TJ, Melsted P, Mallonee AB, Bergman NH, Koren S, Phillippy AM. Genome Biol. 2016 Jun 20;17(1):132. doi: 10.1186/s13059-016-0997-x. <http://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0997-x>`_

`Mash Screen: high-throughput sequence containment estimation for genome discovery.
Ondov BD, Starrett GJ, Sappington A, Kostic A, Koren S, Buck CB, Phillippy AM.
Genome Biol. 2019 Nov 5;20(1):232. doi: 10.1186/s13059-019-1841-x. <https://doi.org/10.1186/s13059-019-1841-x>`_

.. toctree::
   :maxdepth: 1
   
   data

Downloads
=========

* `Linux/OSX binaries and source <https://github.com/marbl/Mash/releases>`_
* `RefSeq sketch database <https://gembox.cbcb.umd.edu/mash/refseq.genomes.k21s1000.msh>`_

Documentation
=============

.. toctree::
   :maxdepth: 2
   
   tutorials
   sketches
   distances