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revision 1.3, Fri Dec 21 17:22:47 2007 UTC revision 1.4, Mon Jan 14 16:38:27 2008 UTC
# Line 40  Line 40 
40      # are pinned (by similarity or PCH) to the input PEG      # are pinned (by similarity or PCH) to the input PEG
41      $regions = &filter_regions_1($pin_desc, $regions);      $regions = &filter_regions_1($pin_desc, $regions);
42    
43      # Get information for each feature -- location, function and the set (of PEGs) it belongs to.      # Get information for each feature -- location, strand, function etc.
     # Assigning set numbers requires BLASTing and use similarity scores to do transitive closure  
44      my $feature_data = &feature_data($fig, $regions);      my $feature_data = &feature_data($fig, $regions);
45    
46      &add_functional_coupling($fig, $pin_desc, $regions, $feature_data);      &add_functional_coupling($fig, $pin_desc, $regions, $feature_data);
47      &add_subsystem_data($fig, $pin_desc, $feature_data);      &add_subsystem_data($fig, $pin_desc, $feature_data);
48    
49      # Assign a set number to some PEGs based on similarity from blast scores      # Assign a set number to some PEGs through transitive closure based on similarity, from blast scores
50      &color_pegs($fig, $pin_desc, $pinned_pegs, $regions, $feature_data, $fast_color, $sims_from);      &color_pegs($fig, $pin_desc, $pinned_pegs, $regions, $feature_data, $fast_color, $sims_from);
51    
52      # Filter out regions which have only a single PEG (the pinned one) colored.      # Filter out regions which have only a single PEG (the pinned one) colored.

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