File	Date	Author	Commit
cwaux	2013-02-16	chrishwiggins	[e264ba] added verbose option.
cwc	2013-02-16	chrishwiggins	[e264ba] added verbose option.
cwlib	2013-02-16	chrishwiggins	[528ecf] adding repository
cwpost	2013-02-16	chrishwiggins	[528ecf] adding repository
dat	2013-02-16	chrishwiggins	[528ecf] adding repository
README.txt	2013-02-16	chrishwiggins	[4415f3] fixes to README

Read Me

Code for "Time-dependent information transmission in a model regulatory circuit"

============

This directory contains code associate with the manuscript

"Time-dependent information transmission in a model regulatory circuit"

by
F. Mancini, C. H. Wiggins, A. M. Walczak, M. Marsili.

============
Directories:

cwc : the 'main' code (see below)

cwlib : 'library' code (not particular to this work)

cwaux : 'auxiliary' code (important calculations for this work)

cwpost : postprocessing and plotting codes

Initialization of parameters uses a file
cwdat/inits.mat

============
Code in cwc:

infodyn: main routine (run this; infinite loop, must interrupt or load output files)

modelset: sets which of 6 standard models is explored.

paramset: sets parameters

custom: if model 7 is chosen, custom must be written, sets nonstandard model

optiloop: inifinite optimization loop

============

what do i do now?

in matlab:
>> cd cwc
>> infodyn
<press return>
<interrupt when you are tired of watching it optimize>
>> plotit('xA_17_MNI.mat',[]);