# This is an illustration of the format of the input file for the program. # any line that starts with a # is a comment and is ignored # any line in which there is a format error is ignored # -> indicates activation, -| indicates inhibition # direct interactions are encoded like below # the Y indicates that it is a critical edge # the E indicates that it is also an enzymatic edge A -> B A -> B Y A -> B Y E A -| B A -| B Y A -| B Y E # indirect causal relationships are encoded like below A -> (B -> C) A -> (B -| C) A -| (B -> C) A -| (B -| C)