Pipeline Features

The LONI Pipeline is a free workflow application primarily aimed at computational scientists. With the LONI Pipeline, users can quickly create workflows that take advantage of all the greatest tools available in neuroimaging, genomics, bioinformatics, etc. Learn more >

Cross Platform Compatible

Work in the operating system that suits you best. Connect from your client to execute processing and analysis remotely on other operating systems.

See software requirements

Cross Platform

Simple User Interface

Free yourself from the hassle of being bogged down by system administration and focus energy on current research problems.

See screenshots


Grid Support

Take advantage of a supercomputing environment by automatically parallelizing data-independent programs in a given analysis.

See supported grid plugins


Pipeline Library

Access hundreds of predefined neuroimaging solutions, including data, modules and workflows that are automatically updated.

See modules library




  • Pipeline 7.0.1 Released

    April 7, 2017
    Pipeline 7.0.1 has been released. This release fixes the important issues with version 7.0.0
    Improved: Performance of the Server Statistics Dialog and database
    Bug preventing backlogged workflows from opening
    Permissions problems of files uploaded through script editor
    Bug on Mac systems that caused the update dialog to keep appearing
    Transformation bug preventing double replace operation
    For full list of changes, please see the release notes.

  • Pipeline 7.0 Released

    March 29, 2017
    Pipeline has been updated to use Java 1.8 as well as a new faster, more reliable database!

    New window in the help menu which summarizes how Pipeline works together with a compute cluster
    New window for displaying detailed information about the grid using new grid stat plugin
    Remote and local file editor feature added to module definition window and Tools menu
    Job management system by module name across all users
    List of program packages available to users on a server is now displayed […]