MATLAB: Plotting data from GML files

graphs

Please can someone help me the plotting of data from a gml file, never worked with such file before. The dataset can be downloaded from http://www-personal.umich.edu/~mejn/netdata/dolphins.zip

Best Answer

fileName = 'dolphins.gml';
inputfile = fopen(fileName);
l=0;
k=1;
A = zeros([],2) ;
while 1
    % Get a line from the input file
    tline = fgetl(inputfile);
    % Quit if end of file
    if ~ischar(tline)
        break
    end
    nums = regexp(tline,'\d+','match');
    if ~isempty(nums)
        if l==1
            l=0;
            A(k,2)=str2double(nums{1});
            k=k+1;
            continue;
        end
        A(k,1)=str2double(nums{1});
        l=1;
    else
        l=0;
        continue;
    end
end
fclose(inputfile) ;
G = zeros([],[]) ;
for i=1:length(A)
    G(A(i,1)+1,A(i,2)+1) = 1;
    G(A(i,2)+1,A(i,1)+1) = 1;
end
figure
g = graph(G) ;
plot(g)
figure
L=diag(sum(G))-G;
[v,~]=eig(L);
xy=v(:,[2 3]) ;
gplot(G,xy,'.-r')

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Got it working now, did some editing..

%Extracting edges from gml file graph
fileName = 'power.gml';
inputfile = fopen(fileName);
Edges=[];
l=0;
k=1;
while 1
  % Get a line from the input file
  tline = fgetl(inputfile);
  % Quit if end of file
  if ~ischar(tline)
    break
  end
  nums = regexp(tline,'\d+','match');
  if length(nums)
    if l==1
      l=3; % the 0 here was the problem...
      Edges(k,2)=str2num(nums{1});  
      k=k+1;
      continue;
    end
    Edges(k,1)=str2num(nums{1});
    l=1;
  else
    l=0;
    continue;
  end
end
Edges = Edges+1;
G = graph(Edges(:,1), Edges(:,2));      % create a graph from A
figure                                  % visualize the graph
plot(G);

MATLAB: How to extract a portion of a CSV file using MATLAB

The following code demonstrates how this functionality can be achieved:

function test
% Set parameters.
inputFile = 'input.csv';
outputFile = 'output.csv';
totalColumns = 4;
rowBegin = 2;
rowEnd = 3;
columnBegin = 2;
columnEnd = 3;
delimiter = ';';
% Call function.
extractdata(inputFile, outputFile, totalColumns, rowBegin, rowEnd, columnBegin, columnEnd, delimiter);
% Function definition.
function extractdata(inputFile, outputFile, totalColumns, rowBegin, rowEnd, columnBegin, columnEnd, delimiter)
% Open input file.
fid = fopen(inputFile, 'r');
% Get header in one line and extract .
headerLines = fgetl(fid);
% Remove trailing delimiter.
if strcmp(headerLines(end), delimiter)
      headerLines = headerLines(1:end-1);
end
% Extract requested portion of the header.
headerLines = textscan(headerLines, [repmat('%*s', 1, columnBegin - 1) repmat('%s', 1, columnEnd - columnBegin + 1) repmat('%*s', 1, totalColumns - columnEnd)], 'Delimiter', delimiter, 'CollectOutput', 1);
headerLines = headerLines{1,1};
% Get integer (%d) data, extracting the requested portion.
% web([docroot '/techdoc/ref/textscan.html'])
C = textscan(fid, [repmat('%*d', 1, columnBegin - 1) repmat('%d', 1, columnEnd - columnBegin + 1) repmat('%*d', 1, totalColumns - columnEnd)], rowEnd, 'Delimiter', delimiter, 'CollectOutput', 1);
% Close input file.
fclose(fid);
% Extract rows.
C = C{1,1};
C = C(rowBegin:rowEnd,:);
% Write extracted column headers in new file.
headerLines = cellfun(@(x)sprintf(['%s' delimiter],x), headerLines, 'UniformOutput', false);
headerLines = cell2mat(headerLines);
headerLines = [headerLines(1:end-1) '\n']; % Remove trailing delimiter and append newline.
fid = fopen(outputFile, 'wt');
fprintf(fid, headerLines);
fclose(fid);
% Append numeric data.
dlmwrite(outputFile, C, '-append', 'delimiter', delimiter, 'precision', '%d', 'newline', 'pc');

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