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department of Biology >
Theoretical Biology & Bioinformatics >
GRIND
GRIND is a powerful and simple system for analyzing systems of
ordinary differential equations (ODEs) and maps. We use it for phase
plane analysis in our courses and for our own research on mathematical
models with just a few equations. GRIND allows you to draw
trajectories, do time plots, draw nullclines (0-isoclines), compute a
Jacobian and its eigenvalues and vectors, and do simple bifurcation
analysis. This is all driven by a simple command language. GRIND
works on Mac OS, Windows and Unix platforms and creates X11, OpenGL,
and PostScript graphical output of publication quality.
Look on the Grind webpage for more info.
CASH
CASH is a fast and easy Cellular Automata simulator
written and programmable in C.
Its main advantage is its speed and
its fast and colorful X11 graphics.
The CASH library has a large number of routines
defining operations over the CA.
These are all optimized for parallel and/or vector machines.
CASH can be obtained via http
download
and a PDF version of the
manual is online available.
For Redhat linux you also can obtain a binary RPM and build the
RPM from the source rpm in the SRPMS directory using the command:
rpm --rebuild PROGRAM.src.rpm
For Ubunto/Debian you can visit the website of Levien van Zon:
Ubuntu
Ref2Bib
Ref2bib is a package translating Medline (medlars) or ISI citations
into bibtex entries. Ref2Bib can be obtained via http download and a PDF version
of the manual is
online available.
For linux you also can obtain a binary RPM. You can
build the RPM for your system from the source rpm in the SRPMS
directory using the command:
rpm --rebuild PROGRAM.src.rpm
FUI
FUI is a program for fitting models to data. It was developed in Los
Alamos. A version than runs under Linux and Mac OS can be
Downloaded.
Theoretical Biology & Bioinformatics /
Last modified on 24 January 2012 /
R.J.DeBoer@uu.nl
