Class and Description |
---|
com.compomics.util.experiment.io.identifications.IdentificationParametersReader
use the SearchParameters class instead
|
com.compomics.software.dialogs.RelimsSetupDialog
the original relims is not used anymore
|
Enum and Description |
---|
com.compomics.util.experiment.identification.SearchParameters.PrecursorAccuracyType
use MassAccuracyType
|
Constructor and Description |
---|
com.compomics.util.experiment.biology.Peptide(String, ArrayList<String>, ArrayList<ModificationMatch>)
use peptide without proteins and remap the peptide to the
proteins a posteriori instead
|
com.compomics.util.experiment.biology.Peptide(String, Double, ArrayList<String>, ArrayList<ModificationMatch>)
use the constructor without mass. The mass will be
recalculated.
|
com.compomics.util.gui.waiting.waitinghandlers.ProgressDialog(JFrame, String, String)
use ProgressDialogX instead
|
com.compomics.util.experiment.biology.PTM(int, String, double, ArrayList<String>)
use amino acid pattern instead
|
com.compomics.util.experiment.biology.PTM(int, String, String, double, ArrayList<String>)
use amino acid pattern instead
|
com.compomics.util.gui.spectrum.SequenceFragmentationPanel(String, ArrayList<IonMatch>, boolean, boolean, ModificationProfile)
use the panel with ion selection instead
|
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