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Overview — pyhrf documentation

PyHRF: a python package to study hemodynamics in fMRI. PyHRF is a set of tools for within-subject fMRI data analysis, which focuses on the characterization of the hemodynamics. Within the chain of fMRI data processing, these tools provide alternatives to the classical within-subject GLM estimation step. The inputs are preprocessed within-subject data and the outputs are statistical maps and/or fitted HRFs. The joint-detection estimation (JDE). The Regularized Finite Impulse Response (RFIR). Vincent, S...

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PyHRF: a python package to study hemodynamics in fMRI. PyHRF is a set of tools for within-subject fMRI data analysis, which focuses on the characterization of the hemodynamics. Within the chain of fMRI data processing, these tools provide alternatives to the classical within-subject GLM estimation step. The inputs are preprocessed within-subject data and the outputs are statistical maps and/or fitted HRFs. The joint-detection estimation (JDE). The Regularized Finite Impulse Response (RFIR). Vincent, S&#4...

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Overview — pyhrf documentation | pyhrf.org Reviews

https://pyhrf.org

PyHRF: a python package to study hemodynamics in fMRI. PyHRF is a set of tools for within-subject fMRI data analysis, which focuses on the characterization of the hemodynamics. Within the chain of fMRI data processing, these tools provide alternatives to the classical within-subject GLM estimation step. The inputs are preprocessed within-subject data and the outputs are statistical maps and/or fitted HRFs. The joint-detection estimation (JDE). The Regularized Finite Impulse Response (RFIR). Vincent, S&#4...

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pyhrf.org

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Python Module Index — pyhrf documentation

http://www.pyhrf.org/py-modindex.html

Pyhrfjde.asl physio 1step. Pyhrfjde.asl physio 1step params. Pyhrfjde.asl physio det fwdm. Pyhrfjde.asl physio hierarchical. Pyhrfjde.asl physio joint. Pyhrfjde.jde multi sess. Pyhrfjde.jde multi sujets. Pyhrfjde.jde multi sujets alpha. Pyhrfjde.nrl.bigaussian drift. Pyhrfsandbox.func BMA consensus clustering. Pyhrfui.vb jde analyser. Pyhrfui.vb jde analyser asl fast. Pyhrfui.vb jde analyser bold fast. Pyhrfvbjde.vem asl models fast. Pyhrfvbjde.vem asl models fast ms. Pyhrfvbjde.vem bold constrained.

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PyHRF commands — pyhrf documentation

http://www.pyhrf.org/commands.html

Pyhrf jde vem analysis. Pyhrf jde vem analysis. Run an fMRI analysis using the JDE-VEM framework All arguments (even positional ones) are optional and default values are defined in the beginning of the script. Extract a sub parcellation comprising only. From the input parcellation. This command lists all data files included in the package. Cortex occipital hrf territories 3mm. Cortex occipital hrf territories convex hull. Cortex occipital right GWmask 3mm. Cortex occipital white surf. Paradigm loc av d.

3

Index — pyhrf documentation

http://www.pyhrf.org/genindex.html

A Entropy() (in module pyhrf.vbjde.vem tools). Abnormal stop() (pyhrf.grid.OneTaskManager method). Acorr() (in module pyhrf.stats.misc). Action() (pyhrf.parcellation.Ant method). Add() (pyhrf.ndarray.xndarray method). Add child() (pyhrf.xmlio.UiNode method). Add prefix() (in module pyhrf.tools.misc). Add root() (pyhrf.tools.misc.Pipeline method). Add suffix() (in module pyhrf.tools.misc). AddDefaultFunctions() (pyhrf.tools.aexpression.ArithmeticExpression method). Ant (class in pyhrf.parcellation). Appen...

4

Volume treatment — pyhrf documentation

http://www.pyhrf.org/volume_treatment.html

The main utilisation of pyhrf is composed of 4 steps :. Configure a pyhrf treatment. Launch the pyhrf detection-estimation procedure. The following procedure details this utilisation to apply the Joint Detection Estimation (JDE) algorithm to fMRI data. PyHRF also provides several tools to build a parcellation, which will be soon documented. The minimal information needed by a Pyhrf treatment for one session is:. The BOLD data, concatenated over all scan volumes, ie 3D time. The time of repetition ( tr.

5

Gibbs Sampling implementation (sandbox) — pyhrf documentation

http://www.pyhrf.org/gibbs_sampler.html

Gibbs Sampling implementation (sandbox). Pyhrf provides tools to implement Gibbs Sampling for a prototyping purpose. The following features are available:. Control of initialization (section Initialization. Trajectory monitoring (section gibbs sampler trajectory. Online mean and variance computation. Checking of error w.r.t. ground-truth (in the context of inference). Short profiling of sample steps. The implementation requires the subclassing of two classes:. In the following, a Starting example. Create...

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This software development project followed the HEROES project. The goal is to build on our work on fMRI analysis to eventually reach clinical applications. This implies the development of a user-friendly and flexible software. The PyHRF package. Published in IEEE trans. on Medical Imaging reports the challenge results. P-LOCUS was best on average among unsupervised methods. The software has been registered at APP in 2013 and is now undergoing industrial development within the Pixyl startup. The High-Dime...

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pyhrf.org

Overview — pyhrf documentation

PyHRF: a python package to study hemodynamics in fMRI. PyHRF is a set of tools for within-subject fMRI data analysis, which focuses on the characterization of the hemodynamics. Within the chain of fMRI data processing, these tools provide alternatives to the classical within-subject GLM estimation step. The inputs are preprocessed within-subject data and the outputs are statistical maps and/or fitted HRFs. The joint-detection estimation (JDE). The Regularized Finite Impulse Response (RFIR). Vincent, S&#4...

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