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MRIaggr (version 1.1.5)

Management, Display, and Processing of Medical Imaging Data

Description

Provide a compact storage for medical imaging data with access and display possibilities. Basic tools for processing brain imaging data are proposed like extraction of brain voxels, morphological image segmentation, and filtering / normalization of contrast parameters. Specific tools are also provided for blood perfusion imaging to calculate hypoperfusion and reperfusion volumes.

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Version

Install

install.packages('MRIaggr')

Monthly Downloads

75

Version

1.1.5

License

GPL-3

Maintainer

Last Published

December 23rd, 2015

Functions in MRIaggr (1.1.5)

class "Carto3D"

selectDescStats

Extract non-stardard elements

Constructor for Latex report

Initialization of the slice numbers

calcTableLesion

Vertical distribution of the lesion

calcContralateral

Compute contraleral normalization values

Carto3D2MRIaggr

Carto3D to MRIaggr converter

Image thresholding

calcDistTissues

Compute descriptive statistics

constCompressMRIaggr

Compress a MRIaggr object

calcRegionalContrast

Compute regional contrast parameters

filtrage3Dmed_cpp

3D median filtering

Diplay a legend of a contrast map

Interface to the Growing Region algorithm

Compute contralateral normalization

Estimation of the local regularization parameters

Compute spatial groups

plotTableLesion

Lesion volume displayed by slices

selectParameter

Extract parameters

filtrage2Dmed_cpp

2D median filtering

constReduceMRIaggr

Reduce a MRIaggr

parameter initialization

Array to data.frame converter

simulPottsFast_cpp

Potts model simulation

calcTableHypoReperf

Compute reperfusion and hypoperfusion tables

calcGroupsCoords

Compute spatial groups

Allocate a neighbourhood matrix

Write an image file

Image filtration

Extract the dimensions of a voxel

selectOptionsMRIaggr

Extract default values

Initialization of a filter

Class "MRIaggr"

Boxplot spatial group characteristics

Array constructor for MRIaggr object

Truncated Normal distribution

calcNormalization

Compute normalization values

Growing Region algorithm

Allocate clinical data

Mid-saggital plan search

Checking argument validity

summary-methods

Summary Method for Class "MRIaggr"

data.frame to array converter

Extract clinical data

Find disjoint spatial blocks of sites

Diplay a contrast parameter by coordinates

selectIdentifier

Extract the identifier

Automatic Growing Region algorithm

Compute geometric caracteristics of a spatial group

Outline a region on a slice

Allocate volumic information

Display initialization

Compute spatial groups

selectDefault_value

Extract reference values

Set or Query Default Values for MRIaggr

Extract spatial coordinates

Correlation between contrast parameters

Checking of the fMMalgo arguments

Graphical display of the probability distribution by group

allocHemisphere

Allocate the position of the mid-saggital plan

MRIaggr.Pat1_red

Example of processed MRIaggr object

allocNormalization

Allocate normalization values

Display quality criteria for the GR algorithm

calcGroupsCoords_cpp

Find spatial groups

Extract the data dimension

Compute the neighbourhood matrix

pointsHemisphere

Add the position of the mid-sagittal plan

Initialization of the slice numbers

Allocate new contrast parameters

Spatial regularization

Allocate non standard elements

Assessment of clustering quality

initialisation of the fMMalgo algorithm

calcGroupsW_cpp

Find spatial groups

Potts model simulation

Spatial regularization using ICM

Find disjoint spatial blocks of sites

Find the mid-sagittal plan

Probabilistic tissue type segmentation

A user frendly interface to fMMalgo

Extract the position of the mid-sagittal plan

finite Mixture Model with spatial regularization

initNeighborhood

Initialization of a neighbourhood filter

Color initialization

Growing Region initialization

calcROCthreshold

selectHemispheres

Extract the position of the lesion in each hemisphere

Read an image file

calcMultiPotential

Computation of the spatial potential

3D plot of the lesion

Initializateurs for the constLatex function

MRIaggr-package

Management, display and processing of cerebral imaging data.

Brain-Background discrimination

allocOptionsMRIaggr

Allocate new default values

Pre-processing of the fMMalgo arguments

initDisplayWindow

Device management

Outline a region on a slice

Extract a neighbourhood matrix

Graphical display of the mixture distribution

Extract the call of the methods applied on the object

Iterated conditional means for spatial regularization

selectNormalization

Extract the normalization values

calcMultiPotential_cpp

Computation of the spatial potential

Estimation of the local and regional spatial correlation

Extract the number of observations

Extract contrast parameters

Simulation under the mixture model

Remove an element of ls_descStats

Gaussian kernel

Slice by slice display

Plot the distribution of the contrast parameter

Compute the outline of a spatial group

Extract volumic information

Area under the PR curve

Write an image file

Remove a contrast parameter

Logistic transform

Graphical display of the convergence criteria

Index initialization

Array constructor for Carto3D objects

Euclidean distance to a spatial group

Draw a sample from a Potts model

calcPottsParameter

Estimation of the local regularization parameters