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![diamond](http://www.diamondsearch.org/diamond_white_95px.png)

Introduction
============

DIAMOND is a sequence aligner for protein and translated DNA searches,
designed for high performance analysis of big sequence data. The key
features are:

-   Pairwise alignment of proteins and translated DNA at 100x-10,000x
    speed of BLAST.
-   [Protein clustering of up to tens of billions of proteins](https://github.com/bbuchfink/diamond/wiki/Clustering)
-   Frameshift alignments for long read analysis.
-   Low resource requirements and suitable for running on standard
    desktops or laptops.
-   Various output formats, including BLAST pairwise, tabular and XML,
    as well as taxonomic classification.

[![Build](https://github.com/bbuchfink/diamond/actions/workflows/cmake.yml/badge.svg)](https://github.com/bbuchfink/diamond/actions/workflows/cmake.yml)
[![Build Status](https://api.travis-ci.com/bbuchfink/diamond.svg?branch=master&status=passed)](https://travis-ci.com/github/bbuchfink/diamond)
[![image](https://img.shields.io/github/downloads/bbuchfink/diamond/total)](https://github.com/bbuchfink/diamond/releases)
[![image](https://anaconda.org/bioconda/diamond/badges/version.svg)](https://anaconda.org/bioconda/diamond)
[![image](https://anaconda.org/bioconda/diamond/badges/downloads.svg)](https://anaconda.org/bioconda/diamond)
[![image](http://diamondsearch.org/cit.svg)](https://scholar.google.com/citations?user=kjPIF1cAAAAJ)
    
Documentation
=============
The online documentation is located at the [GitHub Wiki](https://github.com/bbuchfink/diamond/wiki).

Support
=======
Diamond is actively supported and developed software. Please use the [issue tracker](https://github.com/bbuchfink/diamond/issues) for malfunctions and the [GitHub discussions](https://github.com/bbuchfink/diamond/discussions) for questions, comments, feature requests, etc.

About
=====
DIAMOND is currently developed by Benjamin Buchfink at the Drost lab, Max
Planck Institute for Biology, Tübingen, Germany (since 2019).
Its development was supported for one year by the German Federal Ministry
for Economic Affairs and Energy through an EXIST grant in 2018-2019. It was
developed independently by Benjamin Buchfink from 2016-2018. Its initial
version was developed in 2013-2015 by Benjamin Buchfink at the Huson lab, University
of Tübingen, Germany.

\[[:email:Email](mailto:buchfink@gmail.com)\]
\[[Twitter](https://twitter.com/bbuchfink)\] \[[Google
Scholar](https://scholar.google.de/citations?user=kjPIF1cAAAAJ)\]
\[[Drost lab](https://drostlab.com/)\]
\[[MPI-BIO](http://eb.tuebingen.mpg.de/)\]

**When using the tool in published research, please cite:**

-   Buchfink B, Reuter K, Drost HG, \"Sensitive protein alignments at tree-of-life
    scale using DIAMOND\", *Nature Methods* **18**, 366–368 (2021).
    [doi:10.1038/s41592-021-01101-x](https://doi.org/10.1038/s41592-021-01101-x)

For sequence clustering:

-   Buchfink B, Ashkenazy H, Reuter K, Kennedy JA, Drost HG, \"Sensitive clustering
    of protein sequences at tree-of-life scale using DIAMOND DeepClust\", *bioRxiv*
    2023.01.24.525373; doi: https://doi.org/10.1101/2023.01.24.525373 

Further publications:

-   Buchfink B, Xie C, Huson DH, \"Fast and sensitive protein alignment
    using DIAMOND\", *Nature Methods* **12**, 59-60 (2015).
    [doi:10.1038/nmeth.3176](https://doi.org/10.1038/nmeth.3176)

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