LONI Pipeline

<h2 id="features">Features</h2>
<p>Pipeline has cross platform compatibility, and the ability to connect from your local client to a remote server for executing processing and analysis on other operating systems.
</p><p>Pipeline grants developers the opportunity to create their own plugins to communicate with various grid managers. The default Pipeline package includes the JGDIPlugin and the DRMAAPlugin plugins created for Sun Grid Engine but they may work with Oracle Grid Engine, Univa Grid Engine or Son of Grid Engine. Both plugins are housed under the gridplugins directory which is parented under the dist directory in the installed package of Pipeline. All additional plugins you wish to employ can be downloaded separately.
</p><p>The Pipeline Library grants users access to hundreds of predefined neuroimaging solutions, including data, modules and workflows that are regularly updated.
</p><p>Other integral features of the LONI Pipeline are: 
</p>
<ul><li>Distributed client-server and platform-agnostic computational infrastructure</li>
<li>Reliable, asynchronous and secure data processing</li>
<li>Automated and intelligent data format conversion</li>
<li>Local and remote file browser</li>
<li>Imaging and metadata processing modules</li>
<li>Conditional and iterating modules</li>
<li>A detailed parameter transformation system</li>
<li>Launch client from web browser via Pipeline Web Start</li></ul>
<h2 id="developers">Developers</h2>
<p>Present:
</p>
<ul><li>Samuel Hobel</li></ul>
<p>Past:
</p>
<ul><li>Denis Trotckii</li>
<li>David Rex</li>
<li>Michael Pan</li>
<li>Celia Cheung</li>
<li>Kamen Lozev</li>
<li>Jia-Wei Tam</li>
<li>Zhizhong Liu</li>
<li>Wei Yan</li>
<li>Petros Petrosyan</li>
<li>Arash Payan</li>
<li>Ivo Dinov</li></ul>
<h2 id="see-also">See also</h2>
<ul><li>Laboratory Of Neuro Imaging</li>
<li><a href="/facts/Kepler_scientific_workflow_system/x2PphRu1">Kepler scientific workflow system</a></li>
<li><a href="/facts/Taverna_workbench/Y2v63Cax">Taverna workbench</a></li>
<li><a href="/facts/Bioinformatics_workflow_management_systems/vbqXe4Hh">Bioinformatics workflow management systems</a></li></ul>

<h2 id="external-links">External links</h2>
<ul><li><a href="http://pipeline.loni.usc.edu">LONI Pipeline website</a></li></ul>

<h2 id="references">References</h2>

<ol>
<li id="fn:1"><p>Rex, D. E., Ma, J.Q., and Toga, A.W. (2003). "The LONI Pipeline Processing Environment." Neuroimage, 19(3), 1033-48. <a href="#fnref:1" class="footnote-back-ref">↩</a></p></li>
<li id="fn:2"><p>Rex, D. E., Shattuck, D. W., Woods, R. P., Narr, K. L., Luders, E., Rehm, K., Stolzner, S. E., Rottenberg, D. E., and Toga, A. W. (2004). "A meta-algorithm for brain extraction in MRI." NeuroImage, 23(2), 625–637 <a href="#fnref:2" class="footnote-back-ref">↩</a></p></li>
<li id="fn:3"><p>Dinov ID, Lozev K,  Petrosyan P,  Liu Z,  Eggert P, Pierce, J, Zamanyan, A, Chakrapani, S, Van Horn, JD, Parker, DS, Magsipoc, R, Leung, K, Gutman, B, Woods, RP, Toga, AW. (2010). "Neuroimaging Study Designs, Computational Analyses and Data Provenance Using the LONI Pipeline." PLoS ONE 5(9): e13070. doi:10.1371/journal.pone.0013070. <a href="/wiki/Doi_(identifier)" target="_blank">/wiki/Doi_(identifier)</a> <a href="#fnref:3" class="footnote-back-ref">↩</a></p></li>
<li id="fn:4"><p>Torri, F., Dinov, ID, Zamanyan, A, Hobel, S, Genco, A, Petrosyan, P, Clark, AP, Liu, Z, Eggert, P, Pierce, J, Knowles, JA, Ames, J, Kesselman, C, Toga, AW, Potkin, SG, Vawter, MP, Macciardi, F. (2012) Next Generation Sequence Analysis and Computational Genomics Using Graphical Pipeline Workflows, Genes, 3(3):545-575; doi:10.3390/genes3030545. <a href="#fnref:4" class="footnote-back-ref">↩</a></p></li>
<li id="fn:5"><p>Woo MS, Dinov, ID, Hobel, S, Zamanyan, A, Choi, YC, Thompson, PM, Toga, AW and Alzheimer’s Disease Neuroimaging Initiative (ADNI) (2015) Structural Brain Changes in Early-Onset Alzheimer’s Disease Subjects Using the LONI Pipeline Environment. Journal of Neuroimaging., in press. DOI: 10.1111/jon.12252 <a href="#fnref:5" class="footnote-back-ref">↩</a></p></li>
<li id="fn:6"><p>Toga, WA, Dinov, ID. (2015) Sharing big biomedical data. Journal of Big Data., 2(7):1-12. DOI: 10.1186/s40537-015-0016-1. <a href="#fnref:6" class="footnote-back-ref">↩</a></p></li>
</ol>

LONI Pipeline open-in-new

LONI Pipeline