DDE-BIFTOOL v. 3.2a

• Installation
• Reference and documentation
• Contributors
• Citation
• Copyright, License and No-warranty notice

Installation

• Unzipping ddebiftool.zip creates a "dde_biftool" directory (named "dde_biftool") containing the subfolders:
  • ddebiftool (basic DDE-BIFTOOL routines),
  • demos (example scripts illustrating the use of DDE-BIFTOOL),
  • ddebiftool_extra_psol (extension for local bifurcations of periodic orbits),
  • ddebiftool_extra_nmfm (extension for normal form coefficient computations at local bifurcations of equilibria in DDEs with constant delay),
  • ddebiftool_utilities (auxiliary functions),
  • ddebiftool_extra_rotsym (extension for systems with rotational symmetry).
  • external_tools (support scripts, such as a Mathematica and a Maple script for generating derivative functions used in DDE-BIFTOOL).
• To test the tutorial demo "neuron" (the instructions below assume familiarity with Matlab or octave):
• Start Matlab (version 7.0 or higher) or octave (tested with version 3.8.1)
• Inside Matlab or octave change working directory to demos/neuron using the "cd" command
• Execute script "rundemo" to perform all steps of the tutorial demo
• Compare the outputs on screen and in figure windows with the published output in demos/neuron/html/demo1.html.

Reference and documentation

Current download URL on Sourceforge (including access to versions from 3.1 onward)

https://sourceforge.net/projects/ddebiftool/

URL of original DDE-BIFTOOL website (including access to versions up to 3.0)

http://twr.cs.kuleuven.be/research/software/delay/ddebiftool.shtml

Contact (bug reports, questions etc)

https://sourceforge.net/projects/ddebiftool/support

Manual for version 2.0x

K. Engelborghs, T. Luzyanina, G. Samaey. DDE-BIFTOOL v. 2.00: a Matlab package for bifurcation analysis of delay differential equations. Technical Report TW-330

Manual for current version

manual.pdf (v. 3.2a), stored on arxiv: arxiv.org/abs/1406.7144

Changes for v. 2.03

Addendum_Manual_DDE-BIFTOOL_2_03.pdf (by K. Verheyden)

Changes for v. 3.0

Changes-v3.pdf (by J. Sieber)

Description of extensions ddebiftool_extra_psol and ddebiftool_extra_rotsym

Extra_psol_extension.pdf (by J. Sieber)

Description of the extention ddebiftool_extra_nmfm

nmfm_extension_desctiption.pdf (by M. Bosschaert, B. Wage,  Yu.A. Kuznetsov)

Overview of documented demos

demos/index.html

Contributors

Original code and documentation (v. 2.03)

Revision for v. 3.0, 3.1.x

Bifurcations of periodic orbits

Normal form coefficients for bifurcations of equilibria

Revision for v. 3.2a

Code generation with symbolic Matlab/octave toolbox

Branching off from steady-state codimension-2 bifurcation

Automatic generation of right-hand sides and derivatives in Mathematica

Demo for phase oscillator

External code

Citation

• K. Engelborghs, T. Luzyanina, and D. Roose, Numerical bifurcation analysis of delay differential equations using DDE-BIFTOOL, ACM Trans. Math. Softw. 28 (1), pp. 1-21, 2002.
• K. Engelborghs, T. Luzyanina, G. Samaey. DDE-BIFTOOL v. 2.00: a Matlab package for bifurcation analysis of delay differential equations. Technical Report TW-330, Department of Computer Science, K.U.Leuven, Leuven, Belgium, 2001.
• [Manual of current version, permanent link]
  J. Sieber, K. Engelborghs, T. Luzyanina, G. Samaey, D. Roose: DDE-BIFTOOL Manual - Bifurcation analysis of delay differential equations. arxiv.org/abs/1406.7144.
• [Theoretical background for computation of normal form coefficients, permanent link]
  Sebastiaan Janssens: On a Normalization Technique for Codimension Two Bifurcations of Equilibria of Delay Differential Equations. Master Thesis, Utrecht University (NL), supervised by Yu.A. Kuznetsov and O. Diekmann, dspace.library.uu.nl/handle/1874/312252, 2010.
  
• [Normal form implementation for Hopf-related cases, permanent link]
  Bram Wage: Normal form computations for Delay Differential Equations in DDE-BIFTOOL. Master Thesis, Utrecht University (NL), supervised by Y.A. Kuznetsov, dspace.library.uu.nl/handle/1874/296912, 2014.
  
• [Switching from codim-2 bifurcations]
  M. M. Bosschaert, S. G. Janssens, Y. A. Kuznetsov: Switching to nonhyperbolic cycles from codimension two bifurcations of equilibria of delay differential equations. Preprint arxiv, 2017.

Copyright, License and No-warranty Notice

BSD 2-Clause license Copyright (c) 2019, K.U. Leuven, Department of Computer Science, K. Engelborghs, T. Luzyanina, G. Samaey. D. Roose, K. Verheyden, J. Sieber, B. Wage, D. Pieroux All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: 1. Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. 2. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.