CandidateSearch 1.1.2
Proof-of-concept implementation of a search engine that uses sparse matrix multiplication to identify the best peptide candidates for a given mass spectrum.
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CandidateSearch.util.Settings Member List

This is the complete list of members for CandidateSearch.util.Settings, including all inherited members.

addFixedModification(string aminoAcid, double mass)CandidateSearch.util.Settings
addVariableModification(string aminoAcid, double mass)CandidateSearch.util.Settings
DECOY_SEARCHCandidateSearch.util.Settings
FIXED_MODIFICATIONSCandidateSearch.util.Settings
MAX_CLEAVAGESCandidateSearch.util.Settings
MAX_FRAGMENT_CHARGECandidateSearch.util.Settings
MAX_NEUTRAL_LOSS_MODSCandidateSearch.util.Settings
MAX_NEUTRAL_LOSSESCandidateSearch.util.Settings
MAX_PEP_LENGTHCandidateSearch.util.Settings
MAX_PRECURSOR_CHARGECandidateSearch.util.Settings
MIN_PEP_LENGTHCandidateSearch.util.Settings
MODECandidateSearch.util.Settings
modificationsToString(bool variable=false)CandidateSearch.util.Settings
NORMALIZECandidateSearch.util.Settings
Settings(int MaxCleavages=2, int MinPepLength=5, int MaxPepLength=30, int MaxPrecursorCharge=4, string MaxFragmentCharge="+1", int MaxNeutralLosses=1, int MaxNeutralLossMods=2, bool DecoySearch=true, int TopN=1000, float Tolerance=0.02f, bool Normalize=false, bool UseGaussian=true, string Mode="CPU_SMi32")CandidateSearch.util.Settings
TOLERANCECandidateSearch.util.Settings
TOP_NCandidateSearch.util.Settings
ToString()CandidateSearch.util.Settings
USE_GAUSSIANCandidateSearch.util.Settings
VARIABLE_MODIFICATIONSCandidateSearch.util.Settings