addBiochemicalReaction {rBiopaxParser} | R Documentation |
This function adds a new biochemical reaction of class biochemicalReaction to the biopax model. This is a convenience function, internally the function addBiopaxInstance is called with properties LEFT and RIGHT set.
addBiochemicalReaction(biopax, LEFT = c(), RIGHT = c(), id = NULL)
biopax |
A biopax model |
LEFT |
vector of strings. IDs of the physicalEntityParticipant instances that are on the left side of this reaction. |
RIGHT |
vector of strings. IDs of the physicalEntityParticipant instances that are on the right side of this reaction. |
id |
string. ID for the control. If NULL a new ID is generated with prefix "biochemicalReaction". |
Returns the biopax model with the added pathway.
fkramer
biopax = createBiopax(level=2) biopax = addPhysicalEntity(biopax, class="protein", id="p_id1", NAME="protein1") biopax = addPhysicalEntityParticipant(biopax, "p_id1", id="PEP_p_id1") biopax = addPhysicalEntity(biopax, class="protein", id="p_id2", NAME="protein2") biopax = addPhysicalEntityParticipant(biopax, "p_id2", id="PEP_p_id2") biopax = addBiochemicalReaction(biopax, LEFT=c("PEP_p_id1"), RIGHT=c("PEP_p_id2"), id="biochem_id_1") biopax$dt