Biodb, a Library for Connecting to Chemical and Biological Databases

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Documentation for package ‘biodb’ version 1.2.2

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Biodb The central class of the biodb package.
Biodb-class The central class of the biodb package.
BiodbCache A class for handling file caching.
BiodbCache-class A class for handling file caching.
BiodbConfig A class for storing configuration values.
BiodbConfig-class A class for storing configuration values.
BiodbConn The mother abstract class of all database connectors.
BiodbConn-class The mother abstract class of all database connectors.
BiodbConnBase Base class of 'BiodbConn' for encapsulating all needed information for database access.
BiodbConnBase-class Base class of 'BiodbConn' for encapsulating all needed information for database access.
BiodbConnObserver The observer class of connectors.
BiodbConnObserver-class The observer class of connectors.
BiodbDbInfo A class for describing the characteristics of a database.
BiodbDbInfo-class A class for describing the characteristics of a database.
BiodbDbsInfo A class for describing the available databases.
BiodbDbsInfo-class A class for describing the available databases.
BiodbDownloadable An abstract class (more like an interface) to model a remote database that can be downloaded locally.
BiodbDownloadable-class An abstract class (more like an interface) to model a remote database that can be downloaded locally.
BiodbEditable An abstract class (more like an interface) to model an editable database.
BiodbEditable-class An abstract class (more like an interface) to model an editable database.
BiodbEntry The mother abstract class of all database entry classes.
BiodbEntry-class The mother abstract class of all database entry classes.
BiodbEntryField A class for describing an entry field.
BiodbEntryField-class A class for describing an entry field.
BiodbEntryFields A class for handling description of all entry fields.
BiodbEntryFields-class A class for handling description of all entry fields.
BiodbFactory A class for constructing biodb objects.
BiodbFactory-class A class for constructing biodb objects.
BiodbLogger A class for logging biodb messages either to standard stream or into a file.
BiodbLogger-class A class for logging biodb messages either to standard stream or into a file.
BiodbObserver The mother abstract class of all observer classes.
BiodbObserver-class The mother abstract class of all observer classes.
BiodbRequestScheduler Class for handling URL requests.
BiodbRequestScheduler-class Class for handling URL requests.
BiodbRequestSchedulerRule Scheduler rule class.
BiodbRequestSchedulerRule-class Scheduler rule class.
BiodbWritable An abstract class (more like an interface) to model a writable database.
BiodbWritable-class An abstract class (more like an interface) to model a writable database.
ChemspiderConn The connector class to ChemSpider database.
ChemspiderConn-class The connector class to ChemSpider database.
CompounddbConn An interface for all compound databases.
CompounddbConn-class An interface for all compound databases.
ErrorReporter A class for logging error messages.
ErrorReporter-class A class for logging error messages.
ExpasyEnzymeConn The connector class to Expasy Enzyme database.
ExpasyEnzymeConn-class The connector class to Expasy Enzyme database.
KeggCompoundConn The connector class to KEGG Compound database.
KeggCompoundConn-class The connector class to KEGG Compound database.
KeggConn The connector abstract class to KEGG databases.
KeggConn-class The connector abstract class to KEGG databases.
MassdbConn The mother class of all Mass spectra databases.
MassdbConn-class The mother class of all Mass spectra databases.
RemotedbConn The mother class of all remote database connectors.
RemotedbConn-class The mother class of all remote database connectors.
UniprotConn The connector class to Uniprot database.
UniprotConn-class The connector class to Uniprot database.
WarningReporter A class for logging warning messages.
WarningReporter-class A class for logging warning messages.