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The atlas tool data and file format reference

Introduction

The atlas data is represented by a set of image files (e.g. 3/4D NIFTI files) along with an atlas description file in XML. The image files contain voxel classification values while the XML file caries the associated label and summary image information.

Atlases come in two flavours:

XML Specification

Tag name

Description

Attributes

Tags in header section

name

A text sting to be displayed in any tools when refering to this atlas.

type

Probabilistic, Label.

imagefile

Relative path to the location of the atlas image

summaryimagefile

Relative path to the location of the atlas summary image

Tags in data section

label

Text corresponding to this volume's label

index

x

y

z

Example

<?xml version="1.0" encoding="ISO-8859-1"?>
<atlas version="1.0">
  <header>
    <name>MNI Structural Probability Atlas</name>
    <type>Probabalistic</type>
    <imagefile>/MNI/MNI-prob-2mm</imagefile>
    <summaryimagefile>/MNI/MNI-maxprob-thr25-2mm</summaryimagefile>
  </header>
  <data>
    <label index="0" x="39" y="73" z="35">Caudate</label>
    <label index="1" x="34" y="32" z="15">Cerebellum</label>
    <label index="2" x="45" y="90" z="29">Frontal Lobe</label>
    <label index="3" x="27" y="73" z="30">Insula</label>
    <label index="4" x="50" y="20" z="37">Occipital Lobe</label>
    <label index="5" x="45" y="33" z="61">Parietal Lobe</label>
    <label index="6" x="56" y="69" z="34">Putamen</label>
    <label index="7" x="16" y="53" z="35">Temporal Lobe</label>
    <label index="8" x="48" y="55" z="38">Thalamus</label>
  </data>
</atlas>

2017-04-20 13:23