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[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[PeptideIdentification] & ids)

  • 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)

setName()#

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

setParameters()#

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