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<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="utf-8">
<meta http-equiv="X-UA-Compatible" content="IE=edge">
<meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no">
<meta name="description" content="SCIFIO: a flexible framework for SCientific Image Format Input and Output.">
<meta name="author" content="The SCIFIO Team">
<link rel="icon" type="image/png" sizes="32x32" href="img/favicon-32x32.png">
<link rel="icon" type="image/png" sizes="16x16" href="img/favicon-16x16.png">
<title>SCIFIO</title>
<!-- Bootstrap core CSS -->
<link href="css/bootstrap.min.css" rel="stylesheet">
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<script defer src="https://use.fontawesome.com/releases/v5.8.1/js/solid.js"
integrity="sha384-IA6YnujJIO+z1m4NKyAGvZ9Wmxrd4Px8WFqhFcgRmwLaJaiwijYgApVpo1MV8p77" crossorigin="anonymous">
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<script src="https://oss.maxcdn.com/libs/respond.js/1.4.2/respond.min.js"></script>
<![endif]-->
</head>
<body role="document" style="padding-top: 70px;">
<!-- Fixed navbar -->
<nav class="navbar navbar-expand-lg bg-dark navbar-dark fixed-top" role="navigation">
<div class="container">
<a class="navbar-brand" href="index.html">
<img width="30" height="30" class="d-inline-block align-top" src="img/square-logo.png" alt="SCIFIO logo" />
SCIFIO
</a>
<button class="navbar-toggler" type="button" data-toggle="collapse" data-target="#navbarSupportedContent"
aria-controls="navbarSupportedContent" aria-expanded="false" aria-label="Toggle navigation">
<span class="navbar-toggler-icon"></span>
</button>
<div class="collapse navbar-collapse" id="navbarSupportedContent">
<ul class="navbar-nav mr-auto">
<li class="nav-item active">
<a class="nav-link" href="index.html">Home <span class="sr-only">(current)</span></a>
</li>
<li class="nav-item">
<a class="nav-link" href="images/index.html">Images</a>
</li>
<li class="nav-item">
<a class="nav-link" href="https://github.com/scifio/scifio/wiki">Wiki</a>
</li>
<li class="nav-item">
<a class="nav-link" href="https://github.com/scifio">Source</a>
</li>
<li class="nav-item">
<a class="nav-link" href="https://forum.image.sc/tags/scifio">Forum</a>
</li>
</ul>
</div>
</div>
</nav>
<div class="container" role="main">
<!-- Main jumbotron for a primary marketing message or call to action -->
<div class="jumbotron">
<img src="img/logo.png" class="img-fluid d-block" alt="logo" style="margin-left: auto; margin-right: auto;">
<br />
<p>
SCIFIO is a flexible framework for SCientific Image Format Input and Output. SCIFIO defines a common pattern for
image format construction. Built using the <a href="http://www.scijava.org/">SciJava Common</a> plugin
mechanism, SCIFIO is easily extended—from custom formats to new metadata schema.
</p>
<p>
SCIFIO is developed by the ImageJ development team at the <a href="http://loci.wisc.edu/">Laboratory for Optical
and Computational Instrumentation</a> (LOCI) at the University of Wisconsin-Madison.
</p>
<p>
The SCIFIO core is licensed under a <a
href="http://en.wikipedia.org/wiki/BSD_licenses#2-clause_license_.28.22Simplified_BSD_License.22_or_.22FreeBSD_License.22.29">
Simplified BSD License</a>. It is written in Java 6 compatabile Java.
</p>
<p>
<a href="https://github.com/scifio/scifio" class="btn btn-lg btn-dark" role="button">
<span class="fab fa-github"></span>
See the code
</a>
<a href="https://github.com/scifio/scifio/wiki" class="btn btn-lg btn-primary" role="button">
<span class="fas fa-book"></span>
Read the docs
</a>
</p>
</div>
<div class="card card-body">
<h1>Bio-Formats</h1>
<div class="row">
<div class="col-12 col-md-6 order-md-12">
<img src="img/bio-formats.png" class="img-fluid d-block" alt="Bio-Formats logo" />
</div>
<div class="col-12 col-md-6">
<p>
The Open Microscopy Environment's Bio-Formats library provides the
ability to convert many proprietary image formats to a common OME-TIFF
format, using the OME-XML schema. This allows scientists to freely share
image data without being restricted by proprietary format barriers.
</p>
<p>
SCIFIO was envisioned as a refactoring of Bio-Formats—creating the
framework that would support Bio-Formats and the OME-XML model, but also
allow support for N-Dimensional models and metadata schema from other
imaging domains. The core SCIFIO formats, which are necessarily BSD
licensed, are based on the original Bio-Formats readers.
</p>
<p>
To foster interoperability between SCIFIO and Bio-Formats, such that both
benefit from new formats in the other, we created <a
href="https://github.com/scifio/scifio-bf-compat">SCIFIO-BF-compat</a>: a
compatibility layer for the two projects.
</p>
<a href="http://www.openmicroscopy.org/info/bio-formats" class="btn btn-lg btn-primary" role="button">
<span class="fas fa-book"></span>
Read more
</a>
</div>
</div>
</div>
<br />
<div class="card card-body">
<h1>ImageJ</h1>
<div class="row">
<div class="col-12 col-md-6">
<img src="img/fiji.jpg" class="img-fluid" alt="Image J preview" />
</div>
<div class="col-12 col-md-6">
<p>
The ImageJ2 project is a redesign, from the ground up, of the original <a
href="http://imagej.net/ImageJ1">ImageJ</a> project. Like SCIFIO, it is
built on the SciJava Common plugin framework to facilitate extension at
any level. Additionally, it is built to augment the existing ImageJ 1.x,
allowing almost all of the original ImageJ functionality to remain intact.
</p>
<p>
Using SCIFIO as its image I/O core, ImageJ2 allows users to get support
for all the open formats from SCIFIO and proprietary formats from
Bio-Formats. Further, SCIFIO provides a single point of extension,
allowing any 3rd-party formats to be easily enabled (and co-exist) via
ImageJ2's <a href="http://imagej.net/Update_Sites">update site
mechanism.</a>
</p>
<a href="http://imagej.net/SCIFIO" class="btn btn-lg btn-primary" role="button">
<span class="fas fa-book"></span>
Read more
</a>
</div>
</div>
</div>
<hr />
<footer class="text-center">
<p>
Made with <span class="fas fa-heart" style="color:red"></span> by the SCIFIO team
</p>
<p>
<a href="https://github.com/scifio"><span class="fab fa-lg fa-github" style="color:black"></span></a>
</p>
</footer>
</div> <!-- /container -->
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