FalseDiscoveryRate

class pyopenms.FalseDiscoveryRate

Bases: object

Cython implementation of _FalseDiscoveryRate

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1FalseDiscoveryRate.html

– Inherits from [‘DefaultParamHandler’]

__init__()

Cython signature: void FalseDiscoveryRate()

Methods

__init__

Cython signature: void FalseDiscoveryRate()

apply

  • Cython signature: void apply(libcpp_vector[PeptideIdentification] & forward_ids, libcpp_vector[PeptideIdentification] & reverse_ids)

applyBasic

  • Cython signature: void applyBasic(libcpp_vector[ProteinIdentification] & run_info, libcpp_vector[PeptideIdentification] & ids)

applyEstimated

Cython signature: void applyEstimated(libcpp_vector[ProteinIdentification] & ids)

applyEvaluateProteinIDs

  • Cython signature: double applyEvaluateProteinIDs(libcpp_vector[ProteinIdentification] & ids, double pepCutoff, unsigned int fpCutoff, double diffWeight)

applyPickedProteinFDR

Cython signature: void applyPickedProteinFDR(ProteinIdentification & id, String & decoy_string, bool decoy_prefix, bool groups_too)

getDefaults

Cython signature: Param getDefaults() Returns the default parameters

getName

Cython signature: String getName() Returns the name

getParameters

Cython signature: Param getParameters() Returns the parameters

getSubsections

Cython signature: libcpp_vector[String] getSubsections()

rocN

  • Cython signature: double rocN(libcpp_vector[PeptideIdentification] & ids, size_t fp_cutoff)

setName

Cython signature: void setName(const String &) Sets the name

setParameters

Cython signature: void setParameters(Param & param) Sets the parameters
apply()

  • Cython signature: void apply(libcpp_vector[PeptideIdentification] & forward_ids, libcpp_vector[PeptideIdentification] & reverse_ids)

  • Cython signature: void apply(libcpp_vector[PeptideIdentification] & id)

  • Cython signature: void apply(libcpp_vector[ProteinIdentification] & forward_ids, libcpp_vector[ProteinIdentification] & reverse_ids)

  • Cython signature: void apply(libcpp_vector[ProteinIdentification] & id)

applyBasic()

  • Cython signature: void applyBasic(libcpp_vector[ProteinIdentification] & run_info, libcpp_vector[PeptideIdentification] & ids)

  • Cython signature: void applyBasic(libcpp_vector[PeptideIdentification] & ids, bool higher_score_better, int charge, String identifier, bool only_best_per_pep)

  • Cython signature: void applyBasic(ConsensusMap & cmap, bool use_unassigned_peptides)

  • Cython signature: void applyBasic(ProteinIdentification & id, bool groups_too)

applyEstimated()

Cython signature: void applyEstimated(libcpp_vector[ProteinIdentification] & ids)

applyEvaluateProteinIDs()

  • Cython signature: double applyEvaluateProteinIDs(libcpp_vector[ProteinIdentification] & ids, double pepCutoff, unsigned int fpCutoff, double diffWeight)

  • Cython signature: double applyEvaluateProteinIDs(ProteinIdentification & ids, double pepCutoff, unsigned int fpCutoff, double diffWeight)

applyPickedProteinFDR()

Cython signature: void applyPickedProteinFDR(ProteinIdentification & id, String & decoy_string, bool decoy_prefix, bool groups_too)

getDefaults()

Cython signature: Param getDefaults() Returns the default parameters

getName()

Cython signature: String getName() Returns the name

getParameters()

Cython signature: Param getParameters() Returns the parameters

getSubsections()

Cython signature: libcpp_vector[String] getSubsections()

rocN()

  • Cython signature: double rocN(libcpp_vector[PeptideIdentification] & ids, size_t fp_cutoff)

  • Cython signature: double rocN(ConsensusMap & ids, size_t fp_cutoff, bool include_unassigned_peptides)

  • Cython signature: double rocN(ConsensusMap & ids, size_t fp_cutoff, const String & identifier, bool include_unassigned_peptides)

setName()

Cython signature: void setName(const String &) Sets the name

setParameters()

Cython signature: void setParameters(Param & param) Sets the parameters