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Bio::DB::SoapEUtilitieUsereContributedDPerloDpEUtilities::FetchAdaptor::seq(3)

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
       User feedback is	an integral part of the	evolution of this and other
       Bioperl modules.	Send 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 v5.32.1			 Bio::DB::SoapEUtilities::FetchAdaptor::seq(3)

NAME | SYNOPSIS | DESCRIPTION | SEE ALSO | FEEDBACK | AUTHOR - Mark A. Jensen | CONTRIBUTORS | APPENDIX

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