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1. Load the Salmonella genome-scale model.

2. Create an instance of the LP object. Initially we will use minimisation of total flux as the objective. Since {{{ScrumPy}}} by default uses minimisation as the objective direction, you just need to supply a list of identifiers of all reactions defined in the LP object, this can be obtained from the values of the field {{{}}}

Practical 3

Linear Programming and Flux Balance Analysis with ScrumPy

The general Scrumpy documentation for linear programming can be found here.

Once you have read this you should carry out the following investigations:

1. Load the Salmonella genome-scale model.

2. Create an instance of the LP object. Initially we will use minimisation of total flux as the objective. Since ScrumPy by default uses minimisation as the objective direction, you just need to supply a list of identifiers of all reactions defined in the LP object, this can be obtained from the values of the field

None: Meetings/Delhi2012/Practicals/Practical_3 (last edited 2013-06-07 11:56:14 by david)