Volume 7

Frontiers in Neuroinformatics

Volume 7

1

A fast statistical significance test for baseline correction and comparative analysis in phase locking

Rana, Kunjan D., Vaina, Lucia M., Hämäläinen, Matti S.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.99 MB

english, 2013

2

A framework for streamlining research workflow in neuroscience and psychology

Kubilius, Jonas

Journal:

Frontiers in Neuroinformatics

Year:

2014

Language:

english

File:

PDF, 1.38 MB

english, 2014

3

NeuroLex.org: an online framework for neuroscience knowledge

Larson, Stephen D., Martone, Maryann E.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 3.32 MB

english, 2013

4

A knowledge based approach to matching human neurodegenerative disease and animal models

Maynard, Sarah M., Mungall, Christopher J., Lewis, Suzanna E., Imam, Fahim T., Martone, Maryann E.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.71 MB

english, 2013

5

Mutual information spectrum for selection of event-related spatial components. Application to eloquent motor cortex mapping

Ossadtchi, Alexei, Pronko, Platon, Baillet, Sylvain, Pflieger, Mark E., Stroganova, Tatiana

Journal:

Frontiers in Neuroinformatics

Year:

2014

Language:

english

File:

PDF, 1.90 MB

english, 2014

6

Self-referential forces are sufficient to explain different dendritic morphologies

Memelli, Heraldo, Torben-Nielsen, Benjamin, Kozloski, James

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.32 MB

english, 2013

7

NEuronMOrphological analysis tool: open-source software for quantitative morphometrics

Billeci, Lucia, Magliaro, Chiara, Pioggia, Giovanni, Ahluwalia, Arti

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.81 MB

english, 2013

8

Accelerating compartmental modeling on a graphical processing unit

Ben-Shalom, Roy, Liberman, Gilad, Korngreen, Alon

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.63 MB

english, 2013

9

RipleyGUI: software for analyzing spatial patterns in 3D cell distributions

Hansson, Kristin, Jafari-Mamaghani, Mehrdad, Krieger, Patrik

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 3.29 MB

english, 2013

10

Granger causality is designed to measure effect, not mechanism

Barrett, Adam B., Barnett, Lionel

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 441 KB

english, 2013

11

The neural decoding toolbox

Meyers, Ethan M.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.14 MB

english, 2013

12

Finding neural assemblies with frequent item set mining

Picado-Muiño, David, Borgelt, Christian, Berger, Denise, Gerstein, George, Grün, Sonja

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 3.20 MB

english, 2013

13

The Virtual Brain: a simulator of primate brain network dynamics

Sanz Leon, Paula, Knock, Stuart A., Woodman, M. Marmaduke, Domide, Lia, Mersmann, Jochen, McIntosh, Anthony R., Jirsa, Viktor

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 3.60 MB

english, 2013

14

Bookreview of principles of data integration

Telefont, Martin

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 444 KB

english, 2013

15

Toward open sharing of task-based fMRI data: the OpenfMRI project

Poldrack, Russell A., Barch, Deanna M., Mitchell, Jason P., Wager, Tor D., Wagner, Anthony D., Devlin, Joseph T., Cumba, Chad, Koyejo, Oluwasanmi, Milham, Michael P.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 3.79 MB

english, 2013

16

White matter fiber tracking directed by interpolating splines and a methodological framework for evaluation

Losnegård, Are, Lundervold, Arvid, Hodneland, Erlend

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.32 MB

english, 2013

17

HDDM: Hierarchical Bayesian estimation of the Drift-Diffusion Model in Python

Wiecki, Thomas V., Sofer, Imri, Frank, Michael J.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.36 MB

english, 2013

18

Fully automated rodent brain MR image processing pipeline on a Midas server: from acquired images to region-based statistics

Budin, Francois, Hoogstoel, Marion, Reynolds, Patrick, Grauer, Michael, O'Leary-Moore, Shonagh K., Oguz, Ipek

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.61 MB

english, 2013

19

Impact of functional MRI data preprocessing pipeline on default-mode network detectability in patients with disorders of consciousness

Andronache, Adrian

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.12 MB

english, 2013

20

Growing a garden of neurons

Evans, Rebekah C., Polavaram, Sridevi

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 442 KB

english, 2013

21

A novel CPU/GPU simulation environment for large-scale biologically realistic neural modeling

Hoang, Roger V., Tanna, Devyani, Jayet Bray, Laurence C., Dascalu, Sergiu M., Harris, Frederick C.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.83 MB

english, 2013

22

MOBBED: a computational data infrastructure for handling large collections of event-rich time series datasets in MATLAB

Cockfield, Jeremy, Su, Kyungmin, Robbins, Kay A.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 694 KB

english, 2013

23

The Cerebral Blood Flow Biomedical Informatics Research Network (CBFBIRN) database and analysis pipeline for arterial spin labeling MRI data

Shin, David D., Ozyurt, I. Burak, Liu, Thomas T.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 4.47 MB

english, 2013

24

Neural Schematics as a unified formal graphical representation of large-scale Neural Network Structures

Ehrlich, Matthias, Schüffny, René

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.63 MB

english, 2013

25

Automated parcellation of the brain surface generated from magnetic resonance images

Li, Wen, Andreasen, Nancy C., Nopoulos, Peg, Magnotta, Vincent A.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.21 MB

english, 2013

26

Disruption of transfer entropy and inter-hemispheric brain functional connectivity in patients with disorder of consciousness

Mäki-Marttunen, Verónica, Diez, Ibai, Cortes, Jesus M., Chialvo, Dante R., Villarreal, Mirta

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.28 MB

english, 2013

27

Northwestern University Schizophrenia Data and Software Tool (NUSDAST)

Wang, Lei, Kogan, Alex, Cobia, Derin, Alpert, Kathryn, Kolasny, Anthony, Miller, Michael I., Marcus, Daniel

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 6.50 MB

english, 2013

28

Spyke Viewer: a flexible and extensible platform for electrophysiological data analysis

Pröpper, Robert, Obermayer, Klaus

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.72 MB

english, 2013

29

Multi-atlas segmentation with joint label fusion and corrective learning—an open source implementation

Wang, Hongzhi, Yushkevich, Paul A.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.09 MB

english, 2013

30

Reaction-diffusion in the NEURON simulator

McDougal, Robert A., Hines, Michael L., Lytton, William W.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.17 MB

english, 2013

31

Robust multi-site MR data processing: iterative optimization of bias correction, tissue classification, and registration

Young Kim, Eun, Johnson, Hans J.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 3.07 MB

english, 2013

32

Constructing the resting state structural connectome

Ajilore, Olusola, Zhan, Liang, GadElkarim, Johnson, Zhang, Aifeng, Feusner, Jamie D., Yang, Shaolin, Thompson, Paul M., Kumar, Anand, Leow, Alex

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.98 MB

english, 2013

33

High-throughput neuro-imaging informatics

Miller, Michael I., Faria, Andreia V., Oishi, Kenichi, Mori, Susumu

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 3.17 MB

english, 2013

34

Brain extraction using the watershed transform from markers

Beare, Richard, Chen, Jian, Adamson, Christopher L., Silk, Timothy, Thompson, Deanne K., Yang, Joseph Y. M., Anderson, Vicki A., Seal, Marc L., Wood, Amanda G.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 3.86 MB

english, 2013

35

Electroencephalogram approximate entropy influenced by both age and sleep

Lee, Gerick M. H., Fattinger, Sara, Mouthon, Anne-Laure, Noirhomme, Quentin, Huber, Reto

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 799 KB

english, 2013

36

Integrated workflows for spiking neuronal network simulations

Antolík, Ján, Davison, Andrew P.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.56 MB

english, 2013

37

An efficient, scalable, and adaptable framework for solving generic systems of level-set PDEs

Mosaliganti, Kishore R., Gelas, Arnaud, Megason, Sean G.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.55 MB

english, 2013

38

Hardware-accelerated interactive data visualization for neuroscience in Python

Rossant, Cyrille, Harris, Kenneth D.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.38 MB

english, 2013

39

Information gain in the brain's resting state: A new perspective on autism

Pérez Velázquez, José L., Galán, Roberto F.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.14 MB

english, 2013

40

Virk: an active learning-based system for bootstrapping knowledge base development in the neurosciences

Ambert, Kyle H., Cohen, Aaron M., Burns, Gully A. P. C., Boudreau, Eilis, Sonmez, Kemal

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.57 MB

english, 2013

41

Explicit B-spline regularization in diffeomorphic image registration

Tustison, Nicholas J., Avants, Brian B.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 3.35 MB

english, 2013

42

pySPACE—a signal processing and classification environment in Python

Krell, Mario M., Straube, Sirko, Seeland, Anett, Wöhrle, Hendrik, Teiwes, Johannes, Metzen, Jan H., Kirchner, Elsa A., Kirchner, Frank

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 2.35 MB

english, 2013

43

LFPy: a tool for biophysical simulation of extracellular potentials generated by detailed model neurons

Lindén, Henrik, Hagen, Espen, Łęski, Szymon, Norheim, Eivind S., Pettersen, Klas H., Einevoll, Gaute T.

Journal:

Frontiers in Neuroinformatics

Year:

2014

Language:

english

File:

PDF, 1.05 MB

english, 2014

44

Neural system prediction and identification challenge

Vlachos, Ioannis, Zaytsev, Yury V., Spreizer, Sebastian, Aertsen, Ad, Kumar, Arvind

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.33 MB

english, 2013

45

An automated and reproducible workflow for running and analyzing neural simulations using Lancet and IPython Notebook

Stevens, Jean-Luc R., Elver, Marco, Bednar, James A.

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.02 MB

english, 2013

46

The Design of SimpleITK

Lowekamp, Bradley C., Chen, David T., Ibáñez, Luis, Blezek, Daniel

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.08 MB

english, 2013

47

A midas plugin to enable construction of reproducible web-based image processing pipelines

Grauer, Michael, Reynolds, Patrick, Hoogstoel, Marion, Budin, Francois, Styner, Martin A., Oguz, Ipek

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.52 MB

english, 2013

48

morphforge: a toolbox for simulating small networks of biologically detailed neurons in Python

Hull, Michael J., Willshaw, David J.

Journal:

Frontiers in Neuroinformatics

Year:

2014

Language:

english

File:

PDF, 1.45 MB

english, 2014

49

Nengo: a Python tool for building large-scale functional brain models

Bekolay, Trevor, Bergstra, James, Hunsberger, Eric, DeWolf, Travis, Stewart, Terrence C., Rasmussen, Daniel, Choo, Xuan, Voelker, Aaron Russell, Eliasmith, Chris

Journal:

Frontiers in Neuroinformatics

Year:

2014

Language:

english

File:

PDF, 5.28 MB

english, 2014

50

TheHiveDB image data management and analysis framework

Muehlboeck, J-Sebastian, Westman, Eric, Simmons, Andrew

Journal:

Frontiers in Neuroinformatics

Year:

2014

Language:

english

File:

PDF, 1.32 MB

english, 2014

51

Fast parallel image registration on CPU and GPU for diagnostic classification of Alzheimer's disease

Shamonin, Denis

Journal:

Frontiers in Neuroinformatics

Year:

2013

Language:

english

File:

PDF, 1.60 MB

english, 2013

52

UNC-Utah NA-MIC framework for DTI fiber tract analysis

Verde, Audrey R., Budin, Francois, Berger, Jean-Baptiste, Gupta, Aditya, Farzinfar, Mahshid, Kaiser, Adrien, Ahn, Mihye, Johnson, Hans, Matsui, Joy, Hazlett, Heather C., Sharma, Anuja, Goodlett, Casey

Journal:

Frontiers in Neuroinformatics

Year:

2014

Language:

english

File:

PDF, 1.83 MB

english, 2014

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