Search results for "distribution:FAST GENE"
FAST::Bio::SeqFeature::Gene::UTR - A feature representing an untranslated region that is part of a transcriptional unit
A UTR is a FAST::Bio::SeqFeature::Gene::ExonI compliant object that is non-coding, and can be either 5' or 3' in a transcript....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeature::Gene::Exon - a feature representing an exon
This module implements a feature representing an exon by implementing the FAST::Bio::SeqFeature::Gene::ExonI interface. By default an Exon is coding. Supply -is_coding => 0 to the constructor or call $exon->is_coding(0) otherwise. Apart from that, th...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeature::Gene::ExonI - Interface for a feature representing an exon
A feature representing an exon. An exon in this definition is transcribed and at least for one particular transcript not spliced out of the pre-mRNA. However, it does not necessarily code for amino acid....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeature::Gene::Intron - An intron feature
Describe the object here...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeature::Gene::Promoter - Describes a promoter
Describe the object here...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeature::Gene::NC_Feature - superclass for non-coding features
Describe the object here...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeature::Gene::Transcript - A feature representing a transcript
A feature representing a transcript....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeature::Gene::Poly_A_site - poly A feature
Inherits from FAST::Bio::SeqFeature::Gene::NC_Feature....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeature::Gene::TranscriptI - Interface for a feature representing a transcript of exons, promoter(s), UTR, and a poly-adenylation site.
A feature representing a transcript....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeature::Gene::GeneStructure - A feature representing an arbitrarily complex structure of a gene
A feature representing a gene structure. As of now, a gene structure really is only a collection of transcripts. See FAST::Bio::SeqFeature::Gene::TranscriptI (interface) and FAST::Bio::SeqFeature::Gene::Transcript (implementation) for the features of...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeature::Gene::GeneStructureI - A feature representing an arbitrarily complex structure of a gene
A feature representing a gene structure....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqIO::entrezgene - Entrez Gene ASN1 parser
This is EntrezGene ASN bioperl parser. It is built on top of FAST::Bio::ASN1::EntrezGene, a low level ASN parser built by Mingyi Liu (<http://sourceforge.net/projects/egparser>). The easiest way to use it is shown above. You will get most of the Entr...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::Seq - Sequence object, with features
A Seq object is a sequence with sequence features placed on it. The Seq object contains a PrimarySeq object for the actual sequence and also implements its interface. In Bioperl we have 3 main players that people are going to use frequently FAST::Bio...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqIO - Handler for SeqIO Formats
FAST::Bio::SeqIO is a handler module for the formats in the SeqIO set (eg, FAST::Bio::SeqIO::fasta). It is the officially sanctioned way of getting at the format objects, which most people should use. The FAST::Bio::SeqIO system can be thought of lik...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::OntologyIO::obo - a parser for OBO flat-file format from Gene Ontology Consortium
Needs Graph.pm from CPAN....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::OntologyIO::goflat - a parser for the Gene Ontology flat-file format
Needs Graph.pm from CPAN. This is essentially a very thin derivation of the dagflat parser....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::OntologyIO - Parser factory for Ontology formats
This is the parser factory for different ontology sources and formats. Conceptually, it is very similar to FAST::Bio::SeqIO, but the difference is that the chunk of data returned as an object is an entire ontology....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqIO::kegg - KEGG sequence input/output stream
This class transforms KEGG gene records into FAST::Bio::Seq objects. Mapping of record properties to object properties This section is supposed to document which sections and properties of a KEGG databank record end up where in the Bioperl object mod...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqIO::swiss - Swissprot sequence input/output stream
This object can transform FAST::Bio::Seq objects to and from Swiss-Pprot flat file databases. There is a lot of flexibility here about how to dump things which needs to be documented. GN (Gene name) line management details A Uniprot/Swiss-Prot entry ...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC
FAST::Bio::SeqFeatureI - Abstract interface of a Sequence Feature
This interface is the functions one can expect for any Sequence Feature, whatever its implementation or whether it is a more complex type (eg, a Gene). This object does not actually provide any implementation, it just provides the definitions of what...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC