Uses of Class
data.purifications.PurificationData

Packages that use PurificationData
data.networks   
data.petrinets   
data.purifications   
methods.scores   
methods.scores.bootstrap   
 

Uses of PurificationData in data.networks
 

Methods in data.networks that return PurificationData
 PurificationData ProteinNetwork.derivePurificationData(boolean poolBaits)
          Creates a purification data object from a directed network.
 

Uses of PurificationData in data.petrinets
 

Methods in data.petrinets with parameters of type PurificationData
 void PetriNetCreator.addPurificationData(PurificationData data, String name)
          Adds a purification data set which will be integrated into the Petri net.
 

Uses of PurificationData in data.purifications
 

Methods in data.purifications that return PurificationData
 PurificationData PurificationData.merge(PurificationData mergeWith)
          Merges two purification datasets.
static PurificationData PurificationDataReader.readPurifications(File file)
          Read purification data from a given file.
static PurificationData PurificationDataReader.readPurifications(File file, String organism)
          Read purification data from a given file.
static PurificationData PurificationDataReader.readPurifications(File file, String organism, boolean multiplyPreys)
          Read purification data from a given file.
static PurificationData PurificationDataReader.readPurifications(InputStream input)
          Read purification data from a given input stream.
static PurificationData PurificationDataReader.readPurifications(InputStream input, String organism)
          Read purification data from a given input stream.
static PurificationData PurificationDataReader.readPurifications(InputStream input, String organism, boolean multiplePreys)
          Read purification data from a given input stream.
static PurificationData PurificationDataReader.readPurifications(String file)
          Read purification data from a given file.
static PurificationData PurificationDataReader.readPurifications(String file, String organism)
          Read purification data from a given file.
static PurificationData PurificationDataReader.readPurifications(String file, String organism, boolean multiplyPreys)
          Read purification data from a given file.
 

Methods in data.purifications with parameters of type PurificationData
 PurificationData PurificationData.merge(PurificationData mergeWith)
          Merges two purification datasets.
static void PurificationDataWriter.writePurificationData(PurificationData data, File outfile)
          Writes a purification data set to a given file.
static void PurificationDataWriter.writePurificationData(PurificationData data, OutputStream stream)
          Writes a purification data set to a given output stream
static void PurificationDataWriter.writePurificationData(PurificationData data, String outfile)
          Writes a purification data set to a given file.
 

Uses of PurificationData in methods.scores
 

Constructors in methods.scores with parameters of type PurificationData
HartCalculator(PurificationData dataset)
          Creates a new scores calculator from a given purification data set.
HartCalculator(PurificationData[] datasets)
          Creates a new scores calculator from an array of purification data sets.
PECalculator(PurificationData data, float r, float pseudocount)
          Creates a new Purification Enrichment calculator.
SocioAffinityCalculator(PurificationData data)
          Creates a new socio affinity scores calculator based on a given purification data set.
 

Constructor parameters in methods.scores with type arguments of type PurificationData
HartCalculator(Collection<PurificationData> datasets)
          Creates a new scores calculator from a list of purification data sets.
 

Uses of PurificationData in methods.scores.bootstrap
 

Methods in methods.scores.bootstrap that return PurificationData
 PurificationData PurificationBootstrapSamples.getSample(int sample)
          Returns a given sample from the set.
 

Constructors in methods.scores.bootstrap with parameters of type PurificationData
PurificationBootstrapSamples(PurificationData data, int numberOfSamples)
          Creates a new set of bootstrap samples.