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  • batch rename multiple fasta

    Hi,
    I've a fairly high amount of hybrid assembly tests and the headers of the multiple-fasta files have different strings which I would like to normalize. Could you suggest how can I do a (customized) batch header renaming in multiple fasta files. I.e. [input multiple fasta file] [custom string in the headers, only differentiated by numbering of the contig] [output prefix]? If possible to add qualifiers even better.

    Thanx
    P

  • #2
    You could have a look at Biopieces.

    Especially read_fasta, write_fasta, add_ident and merge_vals.

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    • #3
      Learning a scripting language would be a good idea for working in bioinformatics. This would be easy with Perl and BioPerl, Python and Biopython, or Ruby and BioRuby etc.

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      • #4
        Originally posted by maasha View Post
        You could have a look at Biopieces.

        Especially read_fasta, write_fasta, add_ident and merge_vals.
        Thank you, it solved the question

        cheers
        P

        P.S.-maubp, thank you for the hint...

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