New measures are added: Trophic level and Indirect effects indices.
There has been new developments on how indirect effects are computed, and the original definition has been revised. EcoNet results now include these new revised formulations
. An important missing feature, trophic level, is also added.
EcoNet is becoming popular worldwide!
EcoNet has reached over 3000 unique users from over 90 countries.
Here's what we've stumbled upon on YouTube: a video of students from Budapest building EcoNet models. It was posted on May, 2010.
Matlab output for detailed Network Environ Analysis
output of EcoNet includes a new matrix (Nea) which can be directly
input into a
Matlab function for more detailed Network
Environ Analysis. Simply download the Econet results in Matlab
format, and run both codes as follows:
Stoichiometric matrix and Development Capacity
EcoNet results now include Stoichiometric matrix and Development
Econet 2.0 has replaced EcoNet 1.3
Thanks for all your feedback during the testing period of EcoNet
2.0. Many users noted the "user friendliness" of EcoNet 2.0. Creating
a more capable tool, yet keeping it still "easy to use" was the main
goal of EcoNet 2.0. We intend to develop Econet, make it even more
capable while preserving its simple interface.
EcoNet 2.0 is a lot
more stable, capable and is even easier to use. What is new?
EcoNet 2.0 is currently in Beta. We appreciate your suggestions and
feedback before its final release.
- Stability: You will never see the "EcoNet is busy" page
again, ever. Every code in EcoNet is rewritten to handle many users
simultaneously and effiicently. Once you hit "Run Model", EcoNet will
inform you about how many users are currently using EcoNet with you:
- More analysis results: EcoNet results now include
residence times, compartmental throughflows, connectance, synergism
index, ascendency, total system throughflow, mutualism index, network
aggradation, homogenization index, output oriented throughflow and
storage analysis, control analyis and eco-exergy. Click on "Show
extended results" link to see all analysis results.
- Publication quality figures: You can click on any figure to
download the same figure in EPS (Encapsulated Postscript) format. EPS
is a high quality vector based format for printed media. You can
generate JPEG or GIF files of any desired resolution from this EPS file using
free or commercial software (Adobe, Gimp, etc.).
- Spreadsheet compatibility: You can export EcoNet simulation and
analysis results in Matlab/Octave format, or in CSV (comma separated
value) format for spreadsheet software (Excel, Open Office,
- Updated Documentation: All EcoNet simulation and analysis
results are accompanied with a "(Learn more)" link, which opens the
related documentation in a new browser window for convenience. New
documentation is written for new analysis results, with references to
manuscripts and books.
EcoNet book chapter. 01/15/09 EcoNet 1.2 is
covered in detail in the new book "Handbook of Ecological Modelling
and Informatics", by WIT Press.
No more model size limits.
EcoNet models had to be less then 1024 characters, to be
transferred to EcoNet server. We changed the transfer method, which
increased security, and removed this size limit.
Get individual help with your
you run a model, and get an error, you now have the option to report
the error and receive personalized help for your model. It will help
us refine EcoNet and help you with your model.
EcoNet results are fully compatible with Matlab and
time you run your model, EcoNet automatically creates a Matlab m-file
containing your analysis results. You can then download and run this
file under Matlab or Octave to import all
EcNet results into your workspace. This feature enables users to write
their own Matlab or Octave codes that utilize EcoNet results.
EcoNet paper is published.09/24/07 EcoNet
paper got published at Ecological Modelling. You can cite EcoNet
Kazanci, C., 2007.
EcoNet: A new software for ecological modeling, simulation and network
analysis, Ecol. Model., Vol 208/1 pp 3-8.
EcoNet features donor and recipient controlled
(Lotka-Volterra) flow types. 08/13/07
In addition to donor-controlled flows, EcoNet now
features donor and recipient controlled (Lotka-Volterra) flow
types, useful especially for building predator-prey type
models. Interface is still simple as before; simply use r instead of c (Read more
EcoNet documentation is finally
EcoNet gets a fully detailed documentation, a F.A.Q. page and a Contact
page. The documentation includes an example study (Georgia salt marsh
energy flow study) demonstrating the use of network environ
analysis and EcoNet.
EcoNet simulations now take less
than a second!06/17/07
This is the third performance upgrade since EcoNet
was first online on May 31, 2006. Today, EcoNet runs ten times faster
compared to a year ago. Previously, a compiled Matlab code was used to
create the time-course plot. We replaced it with a new script using GnuPlot, which enables users to
get complete simulation and analysis results in less than a second,
depending on the complexity of their model and their internet
connection. The new time course plots also look smoother because they
are anti-aliased. EcoNet is now Matlab free...
Econet is the news feature today at the University of
Here is a snapshot of UGA homepage
for this day; and here is the news
EcoNet presentations 05/31/07 Econet was a part of our
presentation at the SIAM conference
on applications of dynamical systems, Snowbird, UT.
"Clear Model" button added.04/02/07 We added the "Clear Model" button
to the upper left corner of the model window, so that users can get
rid of the default example model easily.
EcoNet presentation 03/25/07 EcoNet is presented at the TASSA annual conference, Yale
University, CT. Two days ago, EcoNet was presented at the CSBS 2007, the
second annual computational and systems biology symposium, University
of Georgia, GA.
Bug-fix: Problem with pictures 02/12/07 When using MS Internet Explorer,
EcoNet sometimes displayed pictures from previous simulations. This is
actually a problem with IE, rather than EcoNet, as it works fine with
Firefox. Well, now users
can use IE if they have to. Still, we recommend using Firefox when running EcoNet
because IE has many other issues.
EcoNet finally gets a much needed major update with
dynamic menus, a page of examples, and partial documentation
explaining how to write an EcoNet model.
Performance update: EcoNet now runs twice as fast
(less than 4 seconds).12/02/06 Previously, each EcoNet simulation
took eight seconds, mainly due to the inefficiency of some compiled
Matlab routines. As of now, every numerical operation in EcoNet is
performed in C++.
Bug-fix about using tabs 11/29/06 EcoNet gave errors if the model
text contained any tab characters. This issue is fixed. Thanks to
Ramana Callan for contacing us with this problem.
Network diagrams are updated.09/25/07 Previously, network diagrams were
created using Matlab. New scripts that utilize Graphviz not only create nicer
graphs faster, but optimize the location of each compartment according
to its throphic level. Here's the old and the new versions of the oyster
reef ecosystem model network diagram:
EcoNet presentations 08/31/06 EcoNet is a part of our
presentation at ICEM
(International Conference on Ecological Modeling), Yamaguchi, Japan.
We presented EcoNet a month ago at the joint SIAM-SMB Conference on the Life Sciences,
First EcoNet Presentation06/08/06 I introduced EcoNet at the
Ecological Modeling Workshop, University of Copenhagen, Denmark.
Busy page added. 06/03/06 We had to create an "EcoNet is
busy" web page, that comes up when EcoNet is overloaded. It asks the
user to wait for 10 seconds, instead of not responding.
EcoNet is online!05/31/06 This webpage did not exist when
EcoNet went public the first time. EcoNet was a very basic web-page
without menus, with very little documentation. A single simulation
took around 10 seconds to run.