Search results for "dist:BioPerl Bio::Structure::IO"
Bio::Tools::ESTScan - Results of one ESTScan run
The ESTScan module provides a parser for ESTScan coding region prediction output. This module inherits off Bio::Tools::AnalysisResult and therefore implements the Bio::SeqAnalysisParserI interface. See Bio::SeqAnalysisParserI....
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC
Bio::Matrix::Mlagan - A generic matrix with mlagan fields
This is based on Bio::Matrix::Generic, differing by storing gap_open and gap_continue data members to allow mlagan IO (see Bio::Matrix::IO::mlagan). (Those values are 'outside' the matrix.) It also limits the structure to a 6x6 matrix with row & colu...
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC
Bio::Root::Storable - Safely store/retrieve objects from disk
Generic module that allows objects to be safely stored/retrieved from disk. Can be inhereted by any BioPerl object. As it will not usually be the first class in the inheretence list, _initialise_storable() should be called during object instantiation...
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC
Bio::Annotation::TagTree - AnnotationI with tree-like hierarchal key-value relationships ('structured tags') that can be represented as simple text.
This takes tagged data values and stores them in a hierarchal structured element-value hierarchy (complements of Chris Mungall's Data::Stag module). Data can then be represented as text using a variety of output formats (indention, itext, xml, spxr)....
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC
Bio::Event::EventHandlerI - An Event Handler Interface
This interface describes the basic methods required for EventHandlers. These are essentially SAX methods....
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC
Bio::SeqFeature::Collection - A container class for SeqFeatures suitable for performing operations such as finding features within a range, that match a certain feature type, etc.
This object will efficiently allow one for query subsets of ranges within a large collection of sequence features (in fact the objects just have to be Bio::RangeI compliant). This is done by the creation of bins which are stored in order in a B-Tree ...
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC
Bio::Matrix::PSM::PsmHeaderI - handles the header data from a PSM file
Generally you should not use this object directly, you can access the information through a PSM driver (See Bio::Matrix::PSM::IO). It is handling the header data from a PSM file which may be very different. This means that some of the methods will re...
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC