Index of /educationp/ACADEMIC/GEP207A

 Name                    Last modified       Size  Description

 Parent Directory        18-Apr-2005 22:58      -  
 COMMDLG.DLL             31-Oct-1993 23:11    96k  
 COPYING                 03-Oct-1990 20:00    12k  
 DOCS/                   18-Apr-2005 22:58      -  
 EXAMPLES/               18-Apr-2005 22:58      -  
 GEPASI.EXE              09-May-1993 20:00   170k  
 GEPASI.HLP              09-May-1993 20:00    86k  
 GEPASI.PIF              10-Nov-1992 20:00     1k  
 GEPASI_R.BAT            10-Nov-1992 20:00     1k  
 GEPASI_R.PIF            10-Nov-1992 20:00     1k  
 GWSIM.EXE               09-May-1993 20:00   139k  
 GWTOP.EXE               09-May-1993 20:00    88k  
 SETUP/                  18-Apr-2005 22:58      -  
 USER-DEF.KIN            20-Apr-1994 11:41     1k  

INDEX

1 - General
2 - Brief description
3 - Installation
4 - Using GNUPLOT with GEPASI

======================================================================
1 - General

This is GEPASI 2.0, a general purpose simulator of metabolic pathways.
It is a directed towards research and education; it is meant to be a
very useful tool for modelling biochemical pathways, chemical 
reactions,etc. GEPASI is free software covered by the GNU general
public license, version 1.

This version of GEPASI runs under MS-Windows 3.1 in 386 enhanced mode,
on 80386SX and above microprocessors. A maths co-processor is not 
needed but should accelerate the simulations by at least a factor of
10.

======================================================================
2 - Brief description

In order to simulate bichemical pathways, the user must first define
the reactions that are part of the pathway, all its parameters and 
initial concentrations of the metabolites (chemical species). GEPASI
then determines the dynamics and steady state (if there is one),
including the coefficients defined in Metabolic Control Analysis.
GEPASI can be used to study metabolic regulation, chemical and enzyme
kinetics including oscillatory (limit cycle) and chaotic reactions.

The file GEPASI.WRI contains a cut-down version of a paper to appear
in "Modern trends in Biothermokinetics", edited by J.-P. Mazat, S.
Schuster and M. Rigoulet and published by Plenum Press with a short
description of GEPASI. Another more detailed paper has been submitted 
to the journal "Computer Applications in the Biosciences".

For more detailed information see the help file (GEPASI.HLP). The 
subjects of metabolic simulation and metabolic control analysis are 
discussed in the mailing list btk-mca. To subscribe to this list send 
a mail message to biosci@net.bio.net, post to the list to 
btk-mca@net.bio.net.

======================================================================
3 - Installation
    
   a) from a disk

      1 - put the installation disk in one drive (for example A:)
      2 - In MS-Windows' Program Manager select File-Run and enter
          A:SETUP.EXE

   b) from the zip file
     
      1 - unzip all files to a disk or directory
      2 - In MS-Windows' Program Manager select File-Run and enter
          A:SETUP.EXE (or the complete path where you've unzipped
          the files to)

======================================================================
4 - Using GNUPLOT with GEPASI

  To facilitate and speed up the production of plots of the data
generated by GEPASI, this can link to the popular freeware program
GNUPLOT. GNUPLOT has been included in GEPASI's distribution disks.
If you obtained GEPASI from an on-line archive then you need to get
GNUPLOT as well; look in directories named 'windows3' or 'plot'.

Instructions to make GEPASI aware of your copy of GNUPLOT (not needed
for the diskette version):

after installing GNUPLOT,

1 - In GEPASI - Simulation, select Plot...
2 - after pressing OK, find the file WGNUPLOT.EXE in the directory
    where you've installed GNUPLOT, select it and press ENTER.
3 - from now on use Plot... to make your plots!

GEPASI 2.0 (c) 1989,1992,1993 by Pedro Mendes.
prm@aber.ac.uk