C# Class CSMSL.Proteomics.Protein

Inheritance: AminoAcidPolymer

Show file Open project: dbaileychess/CSMSL Class Usage Examples

Public Methods

Method	Description
Digest ( IEnumerable proteases, int maxMissedCleavages = 3, int minLength = 1, int maxLength = int.MaxValue, bool initiatorMethonine = true, bool includeModifications = false, bool semiDigestion = false ) : IEnumerable	Digests this protein into peptides.
Digest ( IProtease protease, int maxMissedCleavages = 3, int minLength = 1, int maxLength = int.MaxValue, bool initiatorMethonine = true, bool includeModifications = false, bool semiDigestion = false ) : IEnumerable	Digests this protein into peptides.
Protein ( string sequence, string description = "", bool isDecoy = false ) : System.Collections.Generic
ToFasta ( ) : Fasta	Converts this protein into the fasta format

Method Details

Digest() public method

Digests this protein into peptides.

public Digest ( IEnumerable proteases, int maxMissedCleavages = 3, int minLength = 1, int maxLength = int.MaxValue, bool initiatorMethonine = true, bool includeModifications = false, bool semiDigestion = false ) : IEnumerable
proteases	IEnumerable	The proteases to digest with
maxMissedCleavages	int	The max number of missed cleavages generated, 0 means no missed cleavages
minLength	int	The minimum length (in amino acids) of the peptide
maxLength	int	The maximum length (in amino acids) of the peptide
initiatorMethonine	bool
includeModifications	bool
semiDigestion	bool
return	IEnumerable

Digest() public method

Digests this protein into peptides.

public Digest ( IProtease protease, int maxMissedCleavages = 3, int minLength = 1, int maxLength = int.MaxValue, bool initiatorMethonine = true, bool includeModifications = false, bool semiDigestion = false ) : IEnumerable
protease	IProtease	The protease to digest with
maxMissedCleavages	int	The max number of missed cleavages generated, 0 means no missed cleavages
minLength	int	The minimum length (in amino acids) of the peptide
maxLength	int	The maximum length (in amino acids) of the peptide
initiatorMethonine	bool
includeModifications	bool
semiDigestion	bool
return	IEnumerable

Protein() public method

public Protein ( string sequence, string description = "", bool isDecoy = false ) : System.Collections.Generic
sequence	string
description	string
isDecoy	bool
return	System.Collections.Generic

ToFasta() public method

Converts this protein into the fasta format

public ToFasta ( ) : Fasta
return	Fasta