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LONI Pipeline Processing Environment

A free workflow application primarily aimed at neuroimaging researchers that allows users to easily describe their executables in a graphical user interface (ie. create a module) and connect them together to create complex analyses all without having to code a single line in a scripting language. The Pipeline Client runs on your PC/Mac/Linux computer upon which you can create sophisticated processing workflows using a variety of commonly available executable tools (e.g. FSL, AIR, FreeSurfer, AFNI, Diffusion Toolkit, etc). The Distributed Pipeline Server can be installed on your Linux cluster and you can submit processing jobs directly to your own compute systems. Once you����??ve created a module for use in the LONI Pipeline, you can save it into your personal library and reuse it in other workflows you create by simply dragging and dropping it in. Because the LONI Pipeline is written in Java, you can work in whatever operating system suits you best. If there are tools that you need that can only work on another operating system, you can install a Pipeline server on that computer and connect from your client to do processing and analysis remotely.

URL: http://www.loni.usc.edu/Software/Pipeline

Resource ID: nif-0000-00322     Resource Type: Resource     Version: Latest Version


workflow, neuroscience, afni brik, analyze, bshort, bfloat, computational neuroscience, dicom, imaging genomics, java, linux, macos, microsoft, minc, minc2, nifti, pet, spect, posix/unix-like, sunos/solaris, windows, windows nt/2000, atlas, birn, ccb, functional, na-mic, registration, segmentation, statistical, surface analysis, visual processing environment, volume, warping, image processing

Curation Status


Listed By

NITRC, Biositemaps

Old URLs


Resource PubMed IDs

PMID: 19649168, PMID: 19826470, PMID: 19826494, PMID: 19915734, PMID: 20927408, PMID: 21791102, PMID: 22493575, PMID: 22493576, PMID: 22616011, PMID: 23139896, PMID: 23964234


LONI Pipeline


LONI Pipeline Environment

Parent Organization

Resource Status

Last checked up;

Funding Information

NIH, P41 RR013642, R01 MH71940, U54 RR021813

Additional Resource Types

workflow software


LONI Software License



Original Submitter


Version Status


Submitted On

12:00am September 21, 2010

Originated From


Changes from Previous Version

First Version

Version 1

Created 5 years ago by Anonymous