Uses of Package
com.compomics.util.parameters.identification

Packages that use com.compomics.util.parameters.identification

Package	Description
com.compomics.cli.identification_parameters	Command line for the handling of identification parameters.
com.compomics.cli.peptide_mapper	Command line for PeptideMapper.
com.compomics.util.experiment.identification.features	Classes for the generation of identification features.
com.compomics.util.experiment.identification.filtering	Classes for the filtering of identification objects.
com.compomics.util.experiment.identification.identification_parameters	Parameters settings for the spectrum identification algorithms.
com.compomics.util.experiment.identification.modification.mapping	Mapping between search engine and Utilities modifications.
com.compomics.util.experiment.identification.modification.search_engine_mapping	Mapping between search engine and Utilities modifications.
com.compomics.util.experiment.identification.peptide_inference	Classes related to peptide inference.
com.compomics.util.experiment.identification.protein_inference.fm_index	Protein sequence database indexing classes based on Burrows-Wheeler transform.
com.compomics.util.experiment.identification.psm_scoring	Main PSM scoring class.
com.compomics.util.experiment.io.identification.writers	Writer for identification results.
com.compomics.util.gui.parameters.identification	GUI classes for parameters, settings and preferences used for identification.
com.compomics.util.parameters.identification	Identification parameters.

Classes in com.compomics.util.parameters.identification used by com.compomics.cli.identification_parameters

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.cli.peptide_mapper

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.experiment.identification.features

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.experiment.identification.filtering

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.experiment.identification.identification_parameters

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.experiment.identification.modification.mapping

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.experiment.identification.modification.search_engine_mapping

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.experiment.identification.peptide_inference

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.experiment.identification.protein_inference.fm_index

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.experiment.identification.psm_scoring

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.experiment.io.identification.writers

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.gui.parameters.identification

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.

Classes in com.compomics.util.parameters.identification used by com.compomics.util.parameters.identification

Class	Description
IdentificationParameters	Generic class grouping the parameters used for protein identification.