DeMosaic

MLModule

genre	Neuro
status	stable
author	Horst Hahn
package	MeVisLab/Standard
dll	MLGeometry1
definition	MLGeometry1.def
keywords	siemens, convert, slices, fmri, dti, mosaic

Purpose

The module DeMosaic reconstructs 4D images from 2D+t Mosaic images used by e.g. Siemens for fMRI- and DTI-Data.

Usage

Attach an input image in mosaic format. Choose to automatically detect the matrix size or manually specify the dimensions of a single slice.

The module will show information about the spacing between slices, the number of slices per 3D volume and the number of timepoints.

Windows

Default Panel

Input Fields

input0

name: input0, type: Image

Input image in mosaic format. All integer and float datatypes are allowed.

Output Fields

output0

name: output0, type: Image

The reconstructed volume in 4D. Output datatype is the same as the input datatype.

Parameter Fields

Field Index

Acquisition Matrix X: Integer	Spacing Between Slices: Float
Acquisition Matrix Y: Integer
Detect matrix size: Bool
flipZAxis: Bool
Number of Slices: Integer
Number of Temporal Positions: Integer
Pixel Spacing: Float
Sequence Name: String

Visible Fields

Acquisition Matrix X

name: matrixX, type: Integer, default: 64

Sets the x-extent of the image matrix manually.

Only available if Detect matrix size is checked.

Acquisition Matrix Y

name: matrixY, type: Integer, default: 64

Sets the y-extent of the image matrix manually.

Only available if Detect matrix size is checked.

Detect matrix size

name: detectMatrixSize, type: Bool, default: TRUE

If checked, the module tries to detect the matrix size automatically.

Otherwise, the image matrix's x/y extent can be set manually with the fields Acquisition Matrix X and Acquisition Matrix Y.

Spacing Between Slices

name: spacingSlices, type: Float, default: 0

Shows the spacing between slices in mm.

Pixel Spacing

name: pixelSpacing, type: Float, default: 0

Shows the in-plane spacing in mm.

Number of Slices

name: numSlices, type: Integer, default: 0

Shows the number of slices in the input image.

Number of Temporal Positions

name: numTemporalPos, type: Integer, default: 0

Shows the number of temporal positions in the input image.

Sequence Name

name: sequenceName, type: String, default: (bad)

Shows the sequence name of the input image.

Hidden Fields

flipZAxis

name: flipZAxis, type: Bool, default: TRUE