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    • #3643
      grkanth
      Participant

      hi people,

      i am new this forum. I am pleased to find this forum.

      has anyone tried using the gap coder. this is small piece of software to score the gap in the DNA sequence alignment.

      I tried several times but i am not getting the proper out put.
      If i modify the the fasta file as per the instruction that is exported from the winclada, the gapcoder doesn’t read.

      please suggest solution to this if any one has used.

      thanks in advance

    • #44187
      twanto
      Participant

      Gapcoder is a funny with formats. Here is my workflow to get it to work: I open my alignment in ClusalX (free alignment software) and export it from there into a PIR format. The GapCoder software has no problems with .pir files but I have never gotten it to work properly with fasta. pir would be option 2 in when you import the file into gapcoder. Hope this helps.

      Nathan

    • #51335
      dlzhqx
      Participant

      Hi, I am also new to this forum. Recently, my supervisor suggested me to use gapcoder. I try to download this programme, but I failed.
      I wonder if anyone could help me for sending this programme by email? Thanks in advance. My email address: zhouqx@hotmail.com

      quote grkanth:

      hi people,

      i am new this forum. I am pleased to find this forum.

      has anyone tried using the gap coder. this is small piece of software to score the gap in the DNA sequence alignment.

      I tried several times but i am not getting the proper out put.
      If i modify the the fasta file as per the instruction that is exported from the winclada, the gapcoder doesn’t read.

      please suggest solution to this if any one has used.

      thanks in advance

    • #51336
      mith
      Participant

      he seems to have disappeared, have you tried this

      http://maen.huh.harvard.edu:8080/services/gap_recoder

    • #51423
      dlzhqx
      Participant

      I have tried, but…… Anyway, Thank you very much!

      quote mithrilhack:

      he seems to have disappeared, have you tried this

      http://maen.huh.harvard.edu:8080/services/gap_recoder

    • #69771
      el diablo
      Participant

      whats a gapcoder software?

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