GenBankParser Class

GenBankParser Class

A GenBankParser reads from a source of text that is formatted according to the GenBank flat file specification, and converts the data to in-memory ISequence objects. For advanced users, the ability to select an encoding for the internal memory representation is provided. There is also a default encoding for each alphabet that may be encountered. Documentation for the latest GenBank file format can be found at ftp.ncbi.nih.gov/genbank/gbrel.txt

Inheritance Hierarchy

SystemObject
Bio.IO.GenBankGenBankParser

Namespace: Bio.IO.GenBank
Assembly: Bio.Core (in Bio.Core.dll) Version: 2.0.0.1 (2.0.0.1)

Syntax

C++

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public sealed class GenBankParser : ISequenceParser, 
	IParserWithAlphabet<ISequence>, IParser<ISequence>, IParser

Public NotInheritable Class GenBankParser
	Implements ISequenceParser, IParserWithAlphabet(Of ISequence), 
	IParser(Of ISequence), IParser

public ref class GenBankParser sealed : ISequenceParser, 
	IParserWithAlphabet<ISequence^>, IParser<ISequence^>, IParser

[<SealedAttribute>]
type GenBankParser =  
    class
        interface ISequenceParser
        interface IParserWithAlphabet<ISequence>
        interface IParser<ISequence>
        interface IParser
    end

The GenBankParser type exposes the following members.

Constructors

	Name	Description
	GenBankParser	Default constructor chooses default encoding based on alphabet.

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Properties

	Name	Description
	Alphabet	The alphabet to use for parsed ISequence objects. If this is not set, an alphabet will be determined based on the file being parsed.
	Description	Gets the description of GenBank parser. This is intended to give developers some information of the formatter class. This property returns a simple description of what the GenBankParser class achieves.
	LocationBuilder	Location builder is used to build location objects from the location string present in the features. By default an instance of LocationBuilder class is used to build location objects.
	Name	Gets the type of Parser i.e GenBank. This is intended to give developers some information of the parser class.
	SupportedFileTypes	Supported file types.

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Methods

	Name	Description
	Equals	Determines whether the specified object is equal to the current object. (Inherited from Object.)
	GetHashCode	Serves as the default hash function. (Inherited from Object.)
	GetType	Gets the Type of the current instance. (Inherited from Object.)
	Parse	Parses a single GenBank text from a reader into a sequence.
	ParseOne	Parse a single entity from the given stream.
	ToString	Returns a string that represents the current object. (Inherited from Object.)

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Reference

Bio.IO.GenBank Namespace