using the gap coder software

[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

[twanto]

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

[dlzhqx]

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: [email protected]

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

[mith]

he seems to have disappeared, have you tried this

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

[dlzhqx]

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

he seems to have disappeared, have you tried this

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

[el diablo]

whats a gapcoder software?