Provided by: libbio-perl-run-perl_1.7.2-4_all bug

NAME

       Bio::DB::SoapEUtilities::FetchAdaptor::seq - Fetch adaptor for 'seq' efetch SOAP messages

SYNOPSIS

       Imported by Bio::DB::SoapEUtilities::FetchAdaptor as required.

DESCRIPTION

       Returns an iterator over Bio::Seq or Bio::Seq::RichSeq objects, depending on the the
       return type of the "efetch". A standard "efetch" to a sequence database will return a
       GenBank SOAP result; this will be parsed into rich sequence objects:

        my $fac = Bio::DB::SoapEUtilities->new;
        my $seqio = $fac->efetch(-db => 'protein', -id => 730439)->run(-auto_adapt=>1);
        my $seq = $seqio->next_seq;
        $seq->species->binomial; # returns 'Bacillus caldolyticus'

       An "efetch" with "-rettype =" 'fasta'> will be parsed into Bio::Seq objects (VERY much
       faster):

        $seqio = $fac->efetch( -rettype => 'fasta' )->run(-auto_adapt=>1);
        $seq = $seqio->next_seq;
        $seq->species; # undef
        $seq->desc; # kitchen sink

       To find out the object type returned:

        $class = $seqio->obj_class;

       as for all Bio::DB::SoapEUtilities::FetchAdaptor objects.

SEE ALSO

       Bio::DB::SoapEUtilities, Bio::DB::SoapEUtilities::FetchAdaptor

FEEDBACK

   Mailing Lists
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       your comments and suggestions preferably to the Bioperl mailing list.  Your participation
       is much appreciated.

         bioperl-l@bioperl.org                  - General discussion
       http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

   Support
       Please direct usage questions or support issues to the mailing list:

       bioperl-l@bioperl.org

       rather than to the module maintainer directly. Many experienced and reponsive experts will
       be able look at the problem and quickly address it. Please include a thorough description
       of the problem with code and data examples if at all possible.

   Reporting Bugs
       Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their
       resolution. Bug reports can be submitted via the web:

         http://redmine.open-bio.org/projects/bioperl/

AUTHOR - Mark A. Jensen

       Email maj -at- fortinbras -dot- us

CONTRIBUTORS

       Much inspiration from Bio::SeqIO and family.

APPENDIX

       The rest of the documentation details each of the object methods.  Internal methods are
       usually preceded with a _

perl v5.28.0                                2018-0Bio::DB::SoapEUtilities::FetchAdaptor::seq(3pm)