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<!DOCTYPE HTML>
<html>
<head>
<title>International Neuroimaging Data-sharing Initiative</title>
<meta charset="utf-8" />
<meta name="viewport" content="width=device-width, initial-scale=1" />
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<link rel="icon" href="https://fcp-indi.github.io/docs/latest/_static/favicon.ico">
</head>
<style>
img {
max-width: 600px;
height: auto;
}
</style>
<body>
<section id="header">
<div class="inner">
<span><img src="images/cpac_logo.svg" width="100%" height="100%" alt="Configurable Pipeline for the Analysis of Connectomes - Child Mind Institute C-PAC"/></span>
<p>Configurable Pipeline for the Analysis of Connectomes</p>
<ul class="actions">
<li><a href="#one" class="button scrolly">Go To Guides & Downloads >></a></li>
</ul>
</div>
</section>
<section id="one" class="main style1 special">
<div class="container">
<header class="major">
<h2>Guides & Resources</h2>
</header>
<div class="row 150%">
<div class="4u 12u$(medium)">
<span class="image fit"><span class="icon style2 major fa-user"></span></span>
<h3>Quick-Start</h3>
<ul class="actions">
<li><a href="/docs/user/quick.html" class="button">GO</a></li>
</ul>
</div>
<div class="4u 12u$(medium)">
<span class="image fit"><span class="icon style2 major fa-user"></span></span>
<h3>User Guide</h3>
<ul class="actions">
<li><a href="/docs/user/index.html" class="button">GO</a></li>
</ul>
</div>
<div class="4u 12u$(medium)">
<span class="image fit"><span class="icon style2 major fa-location-arrow"></span></span>
<h3>Design a Pipeline</h3>
<ul class="actions">
<li><a href="https://fcp-indi.github.io/C-PAC_GUI/versions/latest/browser/#/" class="button">GO</a></li>
</ul>
</div>
</div>
<div class="row 150%">
<div class="4u 12u$(medium)">
<span class="image fit"><span class="icon style3 major fa-git"></span></span>
<h3>View on GitHub</h3>
<ul class="actions">
<li><a href="https://github.com/FCP-INDI/C-PAC" class="button">GO</a></li>
</ul>
</div>
<div class="4u 12u$(medium)">
<span class="image fit"><span class="icon style3 major fa-question-circle"></span></span>
<h3>Support Forums</h3>
<ul class="actions">
<li><a href="https://neurostars.org/tag/cpac" class="button">GO</a></li>
</ul>
</div>
<div class="4u 12u$(medium)">
<span class="image fit"><span class="icon style1 major fa-code"></span></span>
<h3>Developer Documentation</h3>
<ul class="actions">
<li><a href="/docs/developer/index.html" class="button">GO</a></li>
</ul>
</div>
</div>
</div>
</section>
<section id="three" class="main style1">
<div class="container">
<header class="major">
<h2>About C-PAC</h2>
</header>
<p>The Configurable Pipeline for the Analysis of Connectomes (C-PAC) is an open-source software pipeline for automated preprocessing and analysis of resting-state fMRI data. C-PAC builds upon a robust set of existing software packages including <a href="http://afni.nimh.nih.gov/afni">AFNI</a>, <a href="http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/">FSL</a>, and <a href="http://stnava.github.io/ANTs/">ANTS</a>, and makes it easy for both novice users and experts to explore their data using a wide array of analytic tools. Users define analysis pipelines by specifying a combination of preprocessing options and analyses to be run on an arbitrary number of subjects. Results can then be compared across groups using the integrated group statistics feature.</p>
<h3>Optimized For Large Datasets</h3>
<p>Researchers can now explore functional connectome data from thousands of subjects made public through releases by the <a href="http://fcon_1000.projects.nitrc.org/">International Neuroimaging Data-Sharing Initiative (INDI) and 1000 Functional Connectomes Project</a>. With this in mind, C-PAC has been designed to reliably preprocess and analyize data for hundreds of subjects in a single run, either on a single machine or on a compute cluster using Sun Grid Engine, HTCondor, or Portable Batch System.</p>
<h3>Ensure Robust Results</h3>
<p>Different analysis pipelines can produce significantly different results, raising questions about the replicability and reliability of brain imaging findings. C-PAC makes it easy to explore the impact of particular processing decisions by allowing users to run a factorial number of analysis pipelines, each with a different set of preprocessing and analysis options. An integrated Quality Control interface facillitates rapid manual examination of pipeline outputs and selection of subjects to be included in group comparisons.</p>
<h3>Preprocessing Options</h3>
<ul>
<li>Skull Stripping</li>
<li>Template-Based Registration</li>
<li>Automatic Tissue Segmentation</li>
<li>Anatomical / Functional Coregistration</li>
<li>Volume Realignment</li>
<li>Slice Timing Correction</li>
<li>Intensity Normalization</li>
<li>Temporal Filtering</li>
<li>Nuisance Signal Correction</li>
<li>Median Angle Correction</li>
<li>Spatial Smoothing</li>
<li>Motion Scrubbing</li>
</ul>
<h3>Analytic Tools</h3>
<ul>
<li>Seed-based Correlation Analysis</li>
<li>Amplitude of Low Frequency Fluctuations (ALFF) and fALFF</li>
<li>Regional Homogeneity</li>
<li>Voxel-Mirrored Homotopic Connectivity</li>
<li>Timeseries Extraction</li>
<li>Network Centrality</li>
<li>Connectome-Wide Association Studies</li>
<li>Dual Regression</li>
<li>Bootstrap Analysis of Stable Clusters</li>
<li>Group Comparisons</li>
</ul>
</div>
<div class="6u$ 12u$(medium) important(medium)">
<span class="image fit"></span>
<span class="image fit"></span>
</div>
</section>
<section id="four" class="main style2 special">
<div class="container">
<header class="major">
<h2>Questions?</h2>
</header>
<p>Contact us on <a href="https://neurostars.org/tag/cpac" target="_blank">Neurostars</a></p>
<p>C-PAC is a collaborative open science project, being developed in partnership with: </p>
<ul class="actions uniform"><br>
<li><a href="https://www.utexas.edu/"><img src="images/texas.png" width="271" height="78" alt=""/></a></li>
<li><a href="http://www.rfmh.org/nki/"><img src="images/nystate.png" width="372" height="78" alt=""/></a></li><br><br>
<p>C-PAC is maintained by <a href="http://fcon_1000.projects.nitrc.org/">FCP-INDI</a></p>
<!--li><a href="http://fcon_1000.projects.nitrc.org/indi/req_access.html" class="button special">Request Access</a></li>
<li><a href="http://fcon_1000.projects.nitrc.org/indi/indi_ack.html" class="button">Learn More</a></li-->
</ul>
</div>
</section>
<section id="footer">
<ul class="icons">
<li><a href="https://twitter.com/ChildMindDotOrg" target="_blank" class="icon alt fa-twitter"><span class="label">Twitter</span></a></li>
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<li><a href="mailto:[email protected]?subject=From+INDI+Website" class="icon alt fa-envelope"><span class="label">Email</span></a></li>
</ul>
<ul class="copyright">
<li>© 2017-2018 <a href="https://childmind.org">Child Mind Institute</a>, © 2022 C-PAC Developers</li><li>Design: <a href="http://html5up.net">HTML5 UP</a></li>
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