Project SimpleTree - Development moved to Computree platform

Dear interested user. You will find on this homepage my phd work. I found a follow up post doctoral position and continued improving my method within the open source framework Computree. I extended my method to work on plot level and I am providing Windows executables of my plugin within Computree.

As I improved my method quite a bit already I highly recommend using the new software. You can get an impression of the capabilities from the following video tutorial:

You need to have a Computree user account (free) to be able to download. My new contact email is jan.hackenberg@inra.fr, although I still check my Allumni email.

I cannot update this homepage anymore according to my new progress but you still might find here valuable resources, especially in the statistic section.

    The License - Creative Commons Non Commercial Share Alike 4.0

If not stated otherwise, all data on this page are published under the Creative Commons - Attribution-NonCommercial-ShareAlike 4.0 International license. License holder Jan Hackenberg.

Human readable summary of the license

You are free to:

  • Share — copy and redistribute the material in any medium or format
  • Adapt — remix, transform, and build upon the material
The licensor cannot revoke these freedoms as long as you follow the license terms.
Under the following terms:
  • Attribution — You must give appropriate credit, provide a link to the license, and indicate if changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use.
  • NonCommercial — You may not use the material for commercial purposes.
  • ShareAlike — If you remix, transform, or build upon the material, you must distribute your contributions under the same license as the original.
  • No additional restrictions — You may not apply legal terms or technological measures that legally restrict others from doing anything the license permits.
A link to the full license is given here

    Erytrophleum fordii 12 trees

E. fordii is an evergreen sub tropical tree species. Tree scans thereby includes leaf noise. Crowns intersect with each other. Only minor wind occurence, high resolution. Software allows fully automatic denoising and modeling of all twelve trees.

Published in

Non Destructive Method for Biomass Prediction Combining TLS Derived Tree Volume and Wood Density.

Research Site

URL ECTF
Latitude 22°06'02''N
Longditude 106°45'01''E
a.m.s.l. unknown

Biomass results

Please refer to the named publication, tables are included.

Point Clouds

All files are saved in asc file format. Coordinates (x,y,i) and intensity value are whitepace separated.
Erythrophleum fordii raw data, 12 clouds
Within less than thirty minutes raw data clouds have been fully automatically denoised and modeled.
Erythrophleum fordii fully automatically denoised data, 12 clouds
All files can also be opened with Cloud Compare
A second data set provides the twelve clouds manually denoised.
Erythrophleum fordii manual denoised data, 12 clouds


Calculated Models

These are the PLY models from the computation used for publication result. Saved in PLY format and can be opened with Cloud Compare.
Erythrophleum fordii 12 - Ply Models published in Non Destructive Method for Biomass Prediction Combining TLS Derived Tree Volume and Wood Density.
The models computed with this software:
Erythrophleum fordii 12 - Ply Models and Erythrophleum fordii 12 - csv Models fully automatically calculated by SimpleTree after the release of SimpleTree — An Efficient Open Source Tool to Build Tree Models from TLS Clouds.
The results are supposed to vary slightly from those published, as in a second run deviations have to be expected. The automatic parameter search is a randomized brute force one.


    Quercus petraea - Oak Tree 12 trees

The oaks have been scanned in leafless condition in winter 2013/2014. During scanning operations weak rain appeared. Scan data is of high resolution but contains a lot of noise.

Published in

Non Destructive Method for Biomass Prediction Combining TLS Derived Tree Volume and Wood Density.

Research Site

URL Forstamt Johanniskreuz
Latitude 49°17'N
Longditude 7°40'E
a.m.s.l. unknown

Biomass results

Please refer to the named publication, tables are included.

Point Clouds

All files are saved in asc file format. Coordinates (x,y,i) and intensity value are whitepace separated.
Quercus petraea raw data, 12 clouds
Within less than 100 minutes raw data clouds have been fully automatically denoised and modeled.
Quercus petraea fully automatically denoised data, 12 clouds
A second data set provides the twelve clouds manually denoised.
Quercus petraea manual denoised data, 12 clouds
All files can also be opened with Cloud Compare


Calculated Models

These are the PLY models from the computation used for publication result. Saved in PLY format and can be opened with Cloud Compare
Quercus petraea 12 - Models published in Non Destructive Method for Biomass Prediction Combining TLS Derived Tree Volume and Wood Density.
The models computed with this software:
Quercus petraea 12 - Ply Models and Quercus petraea 12 - csv Models fully automatically calculated with SimpleTree after the release of SimpleTree — An Efficient Open Source Tool to Build Tree Models from TLS Clouds.
The results are supposed to vary slightly from those published, as in a second run deviations have to be expected. The automatic parameter search is a randomized brute force one.


    Pinus massoniana - Pine 12 trees

E. fordii is an evergreen sub tropical tree species. Tree scans thereby includes leaf noise. Crowns intersect with each other. Only minor wind occurence, high resolution. Software allows fully automatic denoising and modeling of all twelve trees.

Published in

Non Destructive Method for Biomass Prediction Combining TLS Derived Tree Volume and Wood Density.

Research Site

URL ECTF
Latitude 22°06'02''N
Longditude 106°45'01''E
a.m.s.l. unknown

Biomass results

Please refer to the named publication, tables are included.

Point Clouds

All files are saved in asc file format. Coordinates (x,y,i) and intensity value are whitepace separated.
Pinus massoniana raw data, 12 clouds
Within less than thirty minutes raw data clouds have been automatically denoised and modeled. Some noise is left an models show errors.
Pinus massoniana automatically denoised data, 12 clouds
30 more minutes of manual noise deletion and all clouds could be automatically modelled. Pinus massoniana manual denoised data, 12 clouds
All files can also be opened with Cloud Compare.

Calculated Models

These are the PLY models from the computation used for publication result. Saved in PLY format and can be opened with Cloud Compare.
Pinus massoniana 12 - Models published
The models computed with this software:
Pinus massoniana 12 - Models fully automatically calculated in Non Destructive Method for Biomass Prediction Combining TLS Derived Tree Volume and Wood Density.
The models computed with SimpleTree:
Pinus massoniana 12 - Ply Models and Pinus massoniana 12 - csv Models fully automatically calculated with SimpleTree after the release of SimpleTree — An Efficient Open Source Tool to Build Tree Models from TLS Clouds.
The results are supposed to vary slightly from those published, as in a second run deviations have to be expected. The automatic parameter search is a randomized brute force one.


    Prunus avium - Cherry Tree || Two High resolution clouds

This is data firstly published in April 2014.
The two clouds are considered to be of high quality, only minor noise, occlusion and wind occurrence. The tree clouds have been used for development purposes.

Published in

Highly Accurate Tree Models Derived from Terrestrial Laser Scan Data: A Method Description

Research Site

URL Agroforst Breisach
Latitude 48°04'24''N
Longditude 07°35'26''E
a.m.s.l. 182 m

TLS estimated parameters

parameter Prunus avium #1 Prunus avium #2
DBH [cm] 18.2 19.56
length [m] 11.65 12.72
total Volume [dm3] 177.97 220.55
crown projection area Volume [m2] 8.56 11.97
Saved in CSV format to be done

Point Clouds

Saved in ASC format and can be opened with Cloud Compare

Cherry #1 point cloud - size ~20mio
Cherry #2 point cloud - size ~20mio


Calculated Models

Saved in PLY format and can be opened with Cloud Compare

Cherry #1 - Models
Cherry #2 - Models

    Prunus avium - Cherry Tree || 24 clouds

This is data firstly published in April 2014.
Adds 24 more cherry trees from an agro forestry side to the data set. Non-ground truthed. The tree clouds have been used for analysis of cloud to model distance.
The clouds are considered to be of high quality, only minor noise, occlusion and wind occurrence. Clouds do intersect though with each other, manual removal of other crowns suggested.

Published in

Highly Accurate Tree Models Derived from Terrestrial Laser Scan Data: A Method Description

Research Site

URL Agroforst Breisach
Latitude 48°04'24''N
Longditude 07°35'26''E
a.m.s.l. 182 m

Goodness of Fit

I reproduced the results presented in publication with the newer software version.

Point Clouds

Saved in PCL format pcd and can be opened my software. To import the clouds in Cloud Compare
open the files in text editor and delete the header.
24 cherry clouds

    Tectona Grandis





















Four Tectona Grandis scanned within Lin2Value project. No publication exists, and no desctructive harvesting was applied to collect Ground Truth data. The screenshot of the model is just of a brute force modelling after a long day...

    Tropical Forest Plot including Lianas

















Screenshots depict a tropical forest plot and is taken with TreesVis Software.

Data were collected by Fabian Enssle, fabian.enssle@felis.uni-freiburg.de, (ALUFR) and Jörg Haarpaintner ,Joerg.Haarpaintner@norut.no, (NORUT). If this data is used for publication, Fabian Enssle and Jörg Haarpaintner should be offered a contribution possibility with co-authorship. The ReCover project (EU grant 263075), the Norwegian Research Council (grant nr 204430) and the field mission team should be acknowledged.

In addition to the published plot 6 more plot scans including ground truth data exist.

    Prunus avium, Acer pseudoplatanus, Quercus robur, Fraxinus excelsior

Published in

Highly Accurate Tree Models Derived from Terrestrial Laser Scan Data: A Method Description

Research Site

URL Agroforst Breisach
Latitude 48°04'24''N
Longditude 07°35'26''E
a.m.s.l. 182 m

TLS estimated parameters

Saved in CSV format Volume results by TLS and ground-truth

Point Clouds

Saved in ASC format and can be opened with Cloud Compare

15 point clouds - size ~0.5mio each

 
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