Uses of Package
org.expasy.mzjava.proteomics.ms.dbsearch

Packages that use org.expasy.mzjava.proteomics.ms.dbsearch

Package	Description
org.expasy.mzjava.proteomics.ms.dbsearch

Classes in org.expasy.mzjava.proteomics.ms.dbsearch used by org.expasy.mzjava.proteomics.ms.dbsearch

Class and Description
ArrayDigestDB A peptide digest db that stores peptide digests in ram and is backed by an array.
ArrayDigestDB.Builder Builder
Digest A wrapper for Peptide that has a set to hold the ids of the proteins that the peptide belongs to.
DigestDB A database that stores digested peptides
DigestDB.AmbiguousAminoAcidAction The action to take if a peptide that have amino acids that are ambiguous (Z, B etc) are returned by the digester
PeptideSpectrumCache
PeptideSpectrumDB PeptideSpectrumDB is a facade that collects together all the classes that are required by a peptide spectrum database.
PeptideSpectrumDB.DigestDSL Fluent interface for configuring the protein digestion and fragmentation.
PeptideSpectrumDB.DigestSourceDSL Fluent interface for configuring the protein source
PeptideSpectrumDB.EndDSL
PeptideSpectrumDB.FragmentDSL Fluent interface for configuring the protein digestion and fragmentation.
PeptideSpectrumDB.StartDSL Fluent interface that starts the build.