FAST::Bio::Seq::GapSeqI - GapSeq interface, for gapped sequences
$aa = $gapseq->translate;
This interface extends the FAST::Bio::SeqI interface to give additional functionality to gapped sequences.
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The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : translate Usage : $protein_seq_obj = $dna_seq_obj->translate #if full CDS expected: $protein_seq_obj = $cds_seq_obj->translate(undef,undef,undef,undef,1); Function: Translate with gaps, so that an amino acid is aligned with the last base of a codon, even if said codon is interrupted by gaps. Generally this is only meaningful when input gaps are retained in the output; hence the sequence is suitable for alignment to a DNA sequence. Otherwise, see pod for FAST::Bio::PrimarySeqI Example : "UUUC--CC -> "--F----P" Returns : a protein sequence object Args : none
To install FAST, copy and paste the appropriate command in to your terminal.
cpanm
cpanm FAST
CPAN shell
perl -MCPAN -e shell install FAST
For more information on module installation, please visit the detailed CPAN module installation guide.