EnzymaticDigestionLogModel

class pyopenms.EnzymaticDigestionLogModel

Bases: object

Cython implementation of _EnzymaticDigestionLogModel

Documentation is available at http://www.openms.de/current_doxygen/html/classOpenMS_1_1EnzymaticDigestionLogModel.html

__init__()

  • Cython signature: void EnzymaticDigestionLogModel()

  • Cython signature: void EnzymaticDigestionLogModel(EnzymaticDigestionLogModel &)

Methods

__init__

  • Cython signature: void EnzymaticDigestionLogModel()

digest

Cython signature: void digest(AASequence & protein, libcpp_vector[AASequence] & output) Performs the enzymatic digestion of a protein

getEnzymeName

Cython signature: String getEnzymeName() Returns the enzyme for the digestion

getLogThreshold

Cython signature: double getLogThreshold() Returns the threshold which needs to be exceeded to call a cleavage (only for the trained cleavage model on real data)

peptideCount

Cython signature: size_t peptideCount(AASequence & protein)

setEnzyme

Cython signature: void setEnzyme(String name) Sets the enzyme for the digestion

setLogThreshold

Cython signature: void setLogThreshold(double threshold) Sets the threshold which needs to be exceeded to call a cleavage (only for the trained cleavage model on real data).
digest()

Cython signature: void digest(AASequence & protein, libcpp_vector[AASequence] & output) Performs the enzymatic digestion of a protein

getEnzymeName()

Cython signature: String getEnzymeName() Returns the enzyme for the digestion

getLogThreshold()

Cython signature: double getLogThreshold() Returns the threshold which needs to be exceeded to call a cleavage (only for the trained cleavage model on real data)

peptideCount()

Cython signature: size_t peptideCount(AASequence & protein)

Parameters

protein – Name of protein

setEnzyme()

Cython signature: void setEnzyme(String name) Sets the enzyme for the digestion

setLogThreshold()

Cython signature: void setLogThreshold(double threshold) Sets the threshold which needs to be exceeded to call a cleavage (only for the trained cleavage model on real data). Default is 0.25