Question: Run transmembrane prediction with one multifasta file and multiple MSA sequences.
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gravatar for enkh.tug
3.0 years ago by
enkh.tug0
enkh.tug0 wrote:

Hello.

I am third year Biotechnology student and I need to predict beta-barrell transmembrane proteins in whole proteome (3600~ proteins) for my engineering thesis. I found one program, but I need to use multiple MSA generated by PSI-BLAST with one multifasta file. I have MSA from PSI-BLAST, but it is 3600~seperate files for each protein. Is there anyway to run it one after another? For example to run that program I need to type in terminal: "./predictionprogram.sh protein1sequence.fasta profileofprotein1.prof" and it would be great if I could just type it once and program would load each profile file one after another but use one multlifasta sequence of whole proteome.

Thanks for help!

(PS: sorry for my English, it isn't my first language, I hope I was clear with my question)

psiblast prediction • 667 views
ADD COMMENTlink modified 3.0 years ago by Biostar ♦♦ 20 • written 3.0 years ago by enkh.tug0

Do you have any knowledge using a programming language (python for example)?

ADD REPLYlink written 3.0 years ago by IP590
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