PeptideAndProteinQuant#

class pyopenms.PeptideAndProteinQuant(*args, **kwargs)#

Helper class for peptide and protein quantification based on feature data annotated with IDs DefaultParamHandler

__init__(self) → None#
__init__(self, arg: pyopenms._pyopenms_misc.PeptideAndProteinQuant, /) → None

Attributes

`getDefaults`	Returns the default parameters
`getName`	Returns the name
`getParameters`	Returns the parameters
`getPeptideResults`	Get peptide abundance results as a dict mapping AASequence to PeptideData
`getProteinResults`	Get protein abundance results as a dict mapping protein accession (str) to ProteinData
`getStatistics`	Get summary statistics on quantification
`getSubsections`
`quantifyPeptides`	Compute peptide abundances.
`quantifyProteins`	Compute protein abundances.
`readQuantData`	Overloaded function.
`setName`	Sets the name
`setParameters`	Sets the parameters

getPeptideResults#: Get peptide abundance results as a dict mapping AASequence to PeptideData

getProteinResults#: Get protein abundance results as a dict mapping protein accession (str) to ProteinData

quantifyPeptides#: Compute peptide abundances. Quantitative data must first be read via readQuantData(). Optional peptide-level protein inference information can be supplied via peptides.

quantifyProteins#: Compute protein abundances. Peptide abundances must be computed first with quantifyPeptides(). Optional protein inference information can be supplied via proteins.

readQuantData#

Overloaded function.

readQuantData(self, features: pyopenms._pyopenms_kernel.FeatureMap, ed: pyopenms._pyopenms_metadata.ExperimentalDesign) -> None

Read quantitative data from a feature map

readQuantData(self, consensus: pyopenms._pyopenms_kernel.ConsensusMap, ed: pyopenms._pyopenms_metadata.ExperimentalDesign) -> None

Read quantitative data from a consensus map