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  • #16
    Cheers Sven,

    That looks like a great resource!


    Dan.
    Homepage: Dan Bolser
    MetaBase the database of biological databases.

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    • #17
      hi, you can try the following,

      usage: $0 [options] -l libraryname -s seq.fasta -q qlt.fasta > new.frg
      -v vector-clear-file A file of 'readUID vecBeg vecEnd', one per line, that is the vector clear range.
      -noobt Set the 'doNotOverlapTrim' library feature.
      -454 Set library features appropriate for 454 reads (see also sffToCA).
      -idregex pattern Use this perl regex to extract the read name from the seq defline.
      -l libraryname Name of the library; freeformat text.
      -mean m Insert has mean size of m.
      -stddev s Insert has std dev of s.
      -s seq Fasta file of sequences.
      -q qual Fasta file of quality values.
      -m matepairing A file of pairs of read UIDs for mated reads, one pair per line, whitespace separated

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      • #18
        Originally posted by bio-x View Post
        usage: $0 [options] -l libraryname -s seq.fasta -q qlt.fasta > new.frg
        What is $0 ?
        Homepage: Dan Bolser
        MetaBase the database of biological databases.

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        • #19
          Probably,
          Code:
          convert-fasta-to-v2.pl
          taken from resource mentioned above ..

          cheers,
          Sven

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          • #20
            [QUOTE=bio-x;6068]

            usage: $0 [options] -l libraryname -s seq.fasta -q qlt.fasta > new.frg

            can someone give me a complete exampe to run this command.

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