Package sc.fiji.snt.annotation

Class ZBAtlasUtils

java.lang.Object

sc.fiji.snt.annotation.ZBAtlasUtils

public class ZBAtlasUtils
extends Object

Utility methods for accessing the Max Plank Zebrafish Brain Atlas (ZBA) at fishatlas.neuro.mpg.de.

Author:

Tiago Ferreira

Method Summary

Modifier and Type	Method	Description
static SNTPoint	brainBarycentre()	Returns the spatial centroid of the template brain.
static OBJMesh	getRefBrain()	Retrieves the surface mesh (outline) of the zebrafish template brain.
static String[]	getXYZLabels()
static boolean	isDatabaseAvailable()	Checks whether a connection to the FishAtlas database can be established.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Method Details

isDatabaseAvailable

public static boolean isDatabaseAvailable()

Checks whether a connection to the FishAtlas database can be established.

Returns:

true, if an HHTP connection could be established

brainBarycentre

public static SNTPoint brainBarycentre()

Returns the spatial centroid of the template brain.

Returns:

the SNT point defining the (X,Y,Z) center of the brain outline.

getRefBrain

public static OBJMesh getRefBrain()
                           throws IllegalArgumentException

Retrieves the surface mesh (outline) of the zebrafish template brain.

Returns:

the outline mesh.

Throws:

IllegalArgumentException - if mesh could not be retrieved.

getXYZLabels

public static String[] getXYZLabels()

Returns:

the anatomical descriptions associated with the Cartesian X,Y,Z axes