[Biojava-l] [Off the topic] Selecting template from clustering tree?

[Ashika Umanga Umagiliya]

Greetings,

I use 'Modeller' for homology modeling and,  during the process I get a clustering tree shown as following.And I have to select the best
template using this tree.I was wondering whether there are any tools/features in BioJava that I can use for this?
I don't know the conditions to select the best template (I am from Computer science background),but seems I can you fuzzylogic ,if I know the criteria well.
Any tips?

Best Regards,
umanga


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Sequence identity comparison (ID_TABLE):

   Diagonal       ... number of residues;
   Upper triangle ... number of identical residues;
   Lower triangle ... % sequence identity, id/min(length).

         1b8pA @11bdmA @11civA @25mdhA @27mdhA @21smkA @2
1b8pA @1      327     194     147     151     153      49
1bdmA @1       61     318     152     167     155      56
1civA @2       45      48     374     139     304      53
5mdhA @2       46      53      42     333     139      57
7mdhA @2       47      49      87      42     351      48
1smkA @2       16      18      17      18      15     313


Weighted pair-group average clustering based on a distance matrix:


                                           .----------------------- 1b8pA @1.9    39.0000
                                           |
                                  .-------------------------------- 1bdmA @1.8    50.5000
                                  |
                              .------------------------------------ 5mdhA @2.4    55.3750
                              |
                              |                                .--- 1civA @2.8    13.0000
                              |                                |
        .---------------------------------------------------------- 7mdhA @2.4    83.2500
        |
      .------------------------------------------------------------ 1smkA @2.5

      +----+----+----+----+----+----+----+----+----+----+----+----+
    86.0600   73.4150   60.7700   48.1250   35.4800   22.8350   10.1900
         79.7375   67.0925   54.4475   41.8025   29.1575   16.5125