Home

Article Search

TABLE 1. Ten step workflow for virtual fossil preparation.

 

Task

Step

Process

Reconstruct

1

Reduce blurring by applying noise reduction (see method)

2

Reduce cupping by applying beam hardening correction (see method)

3

Increase contrast by stretching floating point range of fossil grey values

Render

4

Segment fossil from matrix by applying global threshold (Fig.3A)

5

Segment fossil form non-adjacent matrix using region grower tool (Fig. 3B)

6

Remove adjacent matrix with a masking tool (Fig.3C)

7

Repeat steps 4-7 to segment anatomical features (Fig. 3D)

8

Apply lighting and false colour to create virtual specimen see (Fig. 4)

9

Animate rendered 3D model using a keyframer (Fig. 6)

Store

10

Archive slice stack as 8 Bit BMP, 16 Bit DICOM or 32 Bit vol files.

TABLE 2. Data processing software for voxel and surface based 2D and 3D data. The useful tools and applications included in the packages are highlighted.

 

Package

Source

Surface Determination

Magic Wand

Masking

Rendering

Stereo-Anaglyphs

Movie Animation

STL Files

Traditional Morphometrics

Geometric Morphometrics

URL

VG Studio Max

Commercial

3D

3D

2D

3D

3D

3D

3D

3D

3D

www.volumegraphics.com

SPIERS

Freeware

3D

 

2D

3D

3D

 

 

 

 

www.spiers-software.org/

DRISHTI

Freeware

 

 

 

3D

3D

3D

 

 

 

www.sf.anu.edu.au/Vizlab/drishti/

ImageJ

Open Source

 

2D

2D

3D

 

 

 

3D

2D

www.rsb.info.nih.gov/ij/

Mimics

Commercial

3D

2D

3D

3D

 

 

3D

 

 

www.materialise.com/mimics

Simpleware

Commercial

2D

2D

2D

3D

 

3D

3D

3D

 

www.simpleware.com

Amira

Commercial

3D

2D

2D

3D

 

3D

3D

 

 

www.amira.com/

Blender

Open Source

 

 

 

3D

 

3D

 

 

 

www.blender.org

Stratovan Checkpoint

Commercial

 

 

 

 

 

 

 

3D

3D

www.stratovan.com

Meshlab

Commercial

 

 

 

 

 

 

3D

 

3D

www.meshlab.sourceforge.net/

Simpleware

Commercial

2D

2D

2D

3D

 

3D

3D

3D

 

www.simpleware.com

logo smallPalaeontologia Electronica
Webmaster
1998–2019
22 years of electronic palaeontology

PE is archived by CLOCKSS and LOCKSS programs.