LONI Pipeline Processing Environment


The LONI Pipeline is a free workflow application primarily aimed at Neuroimaging Researchers. With the LONI Pipeline, users can create workflows that take advantage of all the greatest Neuroimaging tools available, quickly.


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  • 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.
  • If you don't want to define your own modules, you can connect to the LONI Pipeline server and take advantage of all the modules we have defined for use in our lab. This way, you also get the benefit of all your processing being done on our 600 CPU computing grid.
  • If you have a grid at your disposal the Pipeline can exploit parallelism in your workflow, and process large datasets in about the time it takes to process a single one.
  • Putting together workflows only requires knowledge of your tools and your goal, instead of programming languages and scripts.


LONI Pipeline Processing Environment Support


Download Details

Version: 6.3
Release Date:  2016-04-21
Developer(s): Petros Petrosyan
License: LONI Software License
File Size: 27 MB
SYSTEM REQUIREMENTS OS: NA, Memory: Less than 64Mb for client - 100Mb + X (X denotes variables like client load, etc.), Processor: Not processor-specific
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.
Dinov, ID, Torri, F, Macciardi, F, Petrosyan, P, Liu, Z, Zamanyan, A, Eggert, P, Pierce, J, Genco, A, Knowles, JA, Clark, A, Van Horn, JD, Ames, J, Kesselman, C, Toga, AW. (2011) Applications of the Pipeline Environment for Visual Informatics and Genomics Computations, BMC Bioinformatics, in press (2011).
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
Dinov I, Van Horn JD, Lozev KM, Magsipoc R, Petrosyan P, Liu Z, MacKenzie-Graham A, Eggert P, Parker DS and Toga AW (2009) Efficient, Distributed and Interactive Neuroimaging Data Analysis using the LONI Pipeline. Front. Neuroinform., 3(22):1-10. doi:10.
Leung, K, Parker, D, Cunha, A, Hojatkashani, C, Dinov, I, Toga, A (2008) IRMA: An Image Registration Meta-Algorithm. Lecture Notes in Computer Science, Springer Berlin/Heidelberg, vol 5069:612-617 DOI: 10.1007/978-3-540-69497-7_46
MacKenzie-Graham AJ, Payan A, Dinov ID, Van Horn JD and Toga AW 2008 Neuroimaging Data Provenance Using the LONI Pipeline Workflow Environment. In: Lecture Notes in Computer Science, Freire J, Koop D and Moreau L (Eds). Springer-Verlag, pp 208-220.
MacKenzie-Graham, A., Van Horn, J., Woods, R., Crawford, K., and Toga, A. (2008b). "Provenance in neuroimaging " NeuroImage, 42(1), 178-195.
Rex, DE, Shattuck, DW, Woods, RP, Narr, KL, Luders, E, Rehm, K, Stolzner, SE, Rottenberg, DA, Toga, AW (2004) A meta-algorithm for brain extraction in MRI NeuroImage, Volume 23, Issue 2, October 2004, Pages 625-637, ISSN 1053-8119, DOI: 10.1016/j.neuroima
Rex, D. E., Ma, J. Q., and Toga, A. W. (2003). "The LONI Pipeline Processing Environment." Neuroimage, 19(3), 1033-48.
This work was supported by:
NIH-NCRR 9P41EB015922-15 and 2-P41-RR-013642-15
NIH-NCRR U54 RR021813
NIH-NIMH R01 MH071940
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