:orphan: true

.. _blast-blast-search:

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BLAST search
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This protocol performs a BLAST search over a database, which can be local or a web-server BLAST database.

Input
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.. include:: ../../../templates/plugins/input-help.rst

The input of the protocol is a sequence, which can be from a protein or nucleotide, and the user will be able 
to define the type of search (blastp, blastn, blastx, ...).

In the second parameters tab, different parameters for the search can be tuned. If you are not sure of which 
parameters to use, click on the wizard and the default parameters for the search type will be set.

.. image:: ../../../../_static/images/plugins/blast/blast-search/form.png
   :alt: BLAST search form
   :height: 400
   :align: center

|

The result of this protocol is a ``SetOfSequences`` containing the BLAST hits. The analyze results button will open these sequences in AliViewer.

.. |testCommand| replace:: blast.tests.test_blast.TestBLAST
.. include:: ../../../templates/plugins/protocol-test.rst