| eu.isas.peptideshaker |
PeptideShaker main calculations and jar wrapper.
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| eu.isas.peptideshaker.cmd |
Command line usage.
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| eu.isas.peptideshaker.export |
Exporting data from PeptideShaker.
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| eu.isas.peptideshaker.export.sections |
Export sections.
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| eu.isas.peptideshaker.fileimport |
Import of search results.
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| eu.isas.peptideshaker.followup |
Export for follow-up analysis.
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| eu.isas.peptideshaker.gui |
GUI dialogs and helper classes.
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| eu.isas.peptideshaker.gui.export |
GUI export dialogs.
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| eu.isas.peptideshaker.gui.filtering |
GUI filtering dialogs.
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| eu.isas.peptideshaker.gui.parameters |
Preferences dialogs.
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| eu.isas.peptideshaker.gui.pride |
GUI classes for exporting to PRIDE.
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| eu.isas.peptideshaker.gui.protein_inference |
Protein inference dialogs.
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| eu.isas.peptideshaker.gui.protein_sequence |
Protein sequence annotation.
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| eu.isas.peptideshaker.gui.start |
Getting started dialog.
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| eu.isas.peptideshaker.gui.tablemodels |
Table models.
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| eu.isas.peptideshaker.gui.tabpanels |
Main GUI panels.
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| eu.isas.peptideshaker.parameters |
Parameter settings.
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| eu.isas.peptideshaker.preferences |
Preferences settings.
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| eu.isas.peptideshaker.processing |
Classes used to create PeptideShaker projects.
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| eu.isas.peptideshaker.protein_inference |
Protein inference classes.
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| eu.isas.peptideshaker.ptm |
PTM scoring classes.
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| eu.isas.peptideshaker.recalibration |
Spectrum recalibration.
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| eu.isas.peptideshaker.scoring |
Identification scoring.
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| eu.isas.peptideshaker.scoring.maps |
Target decoy maps.
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| eu.isas.peptideshaker.scoring.maps.specific |
Specific target decoy maps.
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| eu.isas.peptideshaker.scoring.psm_scoring |
PSM scoring.
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| eu.isas.peptideshaker.scoring.targetdecoy |
Target/decoy related classes.
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| eu.isas.peptideshaker.stirred |
Classes used to create stirred projects.
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| eu.isas.peptideshaker.stirred.modules |
Modules for stirred mode.
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| eu.isas.peptideshaker.utils |
Various utilities classes.
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| eu.isas.peptideshaker.validation |
Matches validation.
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