BioNetGen Tips

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MATLAB

  • The cdat and gdat files can be read into MATLAB with the tblread command. For example, typing the following on the command line 
[data,varnames] = tblread('filename.gdat')

creates the variables data and varnames. data is an n-by-(m+1) matrix, where n is the number of time points, column 1 contains the time, and columns 2-(m+1) contain the species or observables concentrations at the given time. varnames is an m dimensional vector that contains the names of the variables in each column of data.

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Wiki

  • A very handy feature for documentation is automatic creation of links to PubMed. All you do is type PMID <number> and a link is automatically created, e.g. PMID 16687399.
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