PeptideEvidence

class pyopenms.PeptideEvidence

Bases: object

Cython implementation of _PeptideEvidence

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1PeptideEvidence.html

__init__()

  • Cython signature: void PeptideEvidence()

  • Cython signature: void PeptideEvidence(PeptideEvidence &)

Methods

__init__

  • Cython signature: void PeptideEvidence()

getAAAfter

Cython signature: char getAAAfter() Returns the amino acid single letter code after the sequence (subsequent amino acid in the protein).

getAABefore

Cython signature: char getAABefore() Returns the amino acid single letter code before the sequence (preceding amino acid in the protein).

getEnd

Cython signature: int getEnd() Returns the position of the last AA of the peptide in protein coordinates (starting at 0 for the N-terminus).

getProteinAccession

Cython signature: String getProteinAccession() Returns the protein accession the peptide matches to.

getStart

Cython signature: int getStart() Returns the position in the protein (starting at 0 for the N-terminus).

hasValidLimits

Cython signature: bool hasValidLimits() Start and end numbers in evidence represent actual numeric indices

setAAAfter

Cython signature: void setAAAfter(char rhs) Sets the amino acid single letter code after the sequence (subsequent amino acid in the protein).

setAABefore

Cython signature: void setAABefore(char rhs) Sets the amino acid single letter code before the sequence (preceding amino acid in the protein).

setEnd

Cython signature: void setEnd(int end) Sets the position of the last AA of the peptide in protein coordinates (starting at 0 for the N-terminus).

setProteinAccession

Cython signature: void setProteinAccession(String s) Sets the protein accession the peptide matches to.

setStart

Cython signature: void setStart(int start) Sets the position of the last AA of the peptide in protein coordinates (starting at 0 for the N-terminus).
getAAAfter()

Cython signature: char getAAAfter() Returns the amino acid single letter code after the sequence (subsequent amino acid in the protein). If not available, UNKNOWN_AA is returned. If C-terminal, C_TERMINAL_AA is returned

getAABefore()

Cython signature: char getAABefore() Returns the amino acid single letter code before the sequence (preceding amino acid in the protein). If not available, UNKNOWN_AA is returned. If N-terminal, N_TERMINAL_AA is returned

getEnd()

Cython signature: int getEnd() Returns the position of the last AA of the peptide in protein coordinates (starting at 0 for the N-terminus). If not available UNKNOWN_POSITION constant is returned

getProteinAccession()

Cython signature: String getProteinAccession() Returns the protein accession the peptide matches to. If not available the empty string is returned

getStart()

Cython signature: int getStart() Returns the position in the protein (starting at 0 for the N-terminus). If not available UNKNOWN_POSITION constant is returned

hasValidLimits()

Cython signature: bool hasValidLimits() Start and end numbers in evidence represent actual numeric indices

setAAAfter()

Cython signature: void setAAAfter(char rhs) Sets the amino acid single letter code after the sequence (subsequent amino acid in the protein). If not available, set to UNKNOWN_AA. If C-terminal set to C_TERMINAL_AA

setAABefore()

Cython signature: void setAABefore(char rhs) Sets the amino acid single letter code before the sequence (preceding amino acid in the protein). If not available, set to UNKNOWN_AA. If N-terminal set to N_TERMINAL_AA

setEnd()

Cython signature: void setEnd(int end) Sets the position of the last AA of the peptide in protein coordinates (starting at 0 for the N-terminus). If not available, set UNKNOWN_POSITION. C-terminal positions must be marked with C_TERMINAL_AA

setProteinAccession()

Cython signature: void setProteinAccession(String s) Sets the protein accession the peptide matches to. If not available set to empty string

setStart()

Cython signature: void setStart(int start) Sets the position of the last AA of the peptide in protein coordinates (starting at 0 for the N-terminus). If not available, set to UNKNOWN_POSITION. N-terminal positions must be marked with N_TERMINAL_AA