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Chaitanya Talnikar edited this page Dec 31, 2012 · 3 revisions

BooleNet

BooleNet format extension

Annotations

Additionally to the Python update rules, the Simulator also imports state interpretations (see also Nodes) as well as annotations.

Ras* = Ras1p or Ras2p
# States of Ras: True="active", False="inactive"
# Annotation of Ras: "pretty cool protein"

In order to be fully compatible with the Python boolenet environment, both informations are coded as Python comments.

Compartments

In a similar manner, we additionally plan to include a possibility to add compartments:

# Compartment Cytosol: Ras1, Ras2, Whi2, Nucleus
Ras1 = True
Ras2 = True
Whi2 = False

# Compartment Nucleus: DNA
DNA = True

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