Home > RAVEN > mapPathwayRxnNames.m

mapPathwayRxnNames

PURPOSE ^

mapPathwayRxnNames

SYNOPSIS ^

function [pathway notMapped]=mapPathwayRxnNames(pathway,originalLabels,newLabels)

DESCRIPTION ^

 mapPathwayRxnNames
   For mapping labels in the pathway object. Useful if you want to change
   what is shown in the reaction boxes.

   pathway         pathway structure representing the pathway to be drawn
   originalLabels  cell array with the original reaction labels
   newLabels       cell array with the new reaction labels

   pathway         an updated pathway structure
   notMapped       a cell array with labels that could not be found in the
                   pathway object

   Usage: [pathway notMapped]=mapPathwayRxnNames(pathway,originalLabels,newLabels)

   Rasmus Agren, 2010-12-16

CROSS-REFERENCE INFORMATION ^

This function calls: This function is called by:

SOURCE CODE ^

0001 function [pathway notMapped]=mapPathwayRxnNames(pathway,originalLabels,newLabels)
0002 % mapPathwayRxnNames
0003 %   For mapping labels in the pathway object. Useful if you want to change
0004 %   what is shown in the reaction boxes.
0005 %
0006 %   pathway         pathway structure representing the pathway to be drawn
0007 %   originalLabels  cell array with the original reaction labels
0008 %   newLabels       cell array with the new reaction labels
0009 %
0010 %   pathway         an updated pathway structure
0011 %   notMapped       a cell array with labels that could not be found in the
0012 %                   pathway object
0013 %
0014 %   Usage: [pathway notMapped]=mapPathwayRxnNames(pathway,originalLabels,newLabels)
0015 %
0016 %   Rasmus Agren, 2010-12-16
0017 %
0018 
0019 if numel(originalLabels)~=numel(newLabels)
0020     throw(MException('','The new label cell array must have the same length as the old label cell array'));
0021 end
0022 
0023 mapped=false(numel(originalLabels),1);
0024 
0025 for i=1:numel(pathway.listOfSpecies)
0026     if strcmpi(pathway.listOfSpecies(i).type,'PROTEIN')
0027         I=strmatch(pathway.listOfSpecies(i).name,originalLabels,'exact');
0028         if any(I)
0029             if numel(I)==1
0030                 pathway.listOfSpecies(i).name=newLabels{I};
0031                 mapped(I)=true;
0032             else
0033                 throw(MException('',['The label "' pathway.listOfSpecies(i).name '" was found in several positions in oldLabels']));
0034             end
0035         end
0036     end
0037 end
0038 
0039 notMapped=originalLabels(~mapped);

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