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biojs-vis-blasterjs

Authors

Description

NPM version

A free to use, open source Javascript BLAST alignments viewer library created by SING group.

How to cite

Blanco-Míguez A, Fdez-Riverola F, SánchezB, Lourenço A (2018) BlasterJS: A novel interactive JavaScript visualisation component for BLAST alignment results. PLoS ONE 13(10): e0205286. https://doi.org/10.1371/journal.pone.0205286

Requeriments

Accepted files

BLAST text and XML output files (-outfmt 0 and 5)

You can check NCBI BLAST user manual.

Getting Started

Install the module with: npm install biojs-vis-blasterjs

<head>
	<link rel="stylesheet" href="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.6/css/bootstrap.min.css" integrity="sha384-1q8mTJOASx8j1Au+a5WDVnPi2lkFfwwEAa8hDDdjZlpLegxhjVME1fgjWPGmkzs7" crossorigin="anonymous" />
    ...
</head>
<body>
    ...
    <input type="file" id="blastinput" />
    <div id="blast-multiple-alignments"></div>
    <div id="blast-alignments-table"></div>
    <div id="blast-single-alignment"></div>
    ...
    <script type="text/javascript" src="js/html2canvas.js"></script>  
    <script type="text/javascript" src="js/blaster.js"></script>   
    <script type="text/javascript">
      var blasterjs = require("biojs-vis-blasterjs");
      var instance = new blasterjs({
         input: "blastinput",
         multipleAlignments: "blast-multiple-alignments",
         alignmentsTable: "blast-alignments-table",
         singleAlignment: "blast-single-alignment"
      });
    </script>
</body>

Custom options:

Get alignments via String instead of input form:

...
<script type="text/javascript">
  var alignments = "...";

  var blasterjs = require("biojs-vis-blasterjs");
  var instance = new blasterjs({
     string: alignments,
     multipleAlignments: "blast-multiple-alignments",
     alignmentsTable: "blast-alignments-table",
     singleAlignment: "blast-single-alignment",
  });
</script>
...

Define a custom callback on alignment table item click event:

...
<script type="text/javascript">
  var blasterjs = require("biojs-vis-blasterjs");
  var instance = new blasterjs({
     input: "blastinput",
     multipleAlignments: "blast-multiple-alignments",
     alignmentsTable: "blast-alignments-table",
     singleAlignment: "blast-single-alignment",
     callback: function(alignment) { ... }
  });
</script>
...

Institution

[© SING - Sistemas Informáticos de Nueva Generación 2015]
Department of Computer Science, University of Vigo
ESEI - Escuela Superior de Ingeniería Informática Edificio politécnico
Campus Universitario As Lagoas s/n
32004 Ourense, Spain
Tel: +34 988 387 013
Fax: +34 988 387 001

Contributing

All contributions are welcome.

Support

If you have any problem or suggestion please open an issue here.

License

GNU General Public License v3

BlasterJS is a free to use, open source JS library created by SING Group. Copyright (C) 2019 SING - Sistemas Informaticos de Nueva Generacion

This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see http://www.gnu.org/licenses/.

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BlasterJS - an open source JS library to display Blast results

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