Index

A B C D E F G H I J L M N O P Q R S T U V W X Y Z
All Classes and Interfaces|All Packages|Constant Field Values|Serialized Form

H

handleEvent(Event) - Method in class bacnet.table.gui.ColorMapperWizardPage

hasAttribute(String) - Method in class org.biojava3.genome.parsers.gff.Feature

hasAttribute(String) - Method in interface org.biojava3.genome.parsers.gff.FeatureI

Check if the feature has a value defined for the specified key.

hasAttribute(String) - Method in class org.biojava3.genome.parsers.gff.FeatureList

Check if any feature in list has the specified attribute key.

hasAttribute(String, String) - Method in class org.biojava3.genome.parsers.gff.Feature

hasAttribute(String, String) - Method in interface org.biojava3.genome.parsers.gff.FeatureI

Check if the feature attributes include the specified key/value pair.

hasAttribute(String, String) - Method in class org.biojava3.genome.parsers.gff.FeatureList

Check if any feature in list has the specified attribute key/value pair.

hasCompound(C) - Method in class org.biojava3.core.sequence.template.AbstractCompoundSet

hasCompound(C) - Method in interface org.biojava3.core.sequence.template.CompoundSet

hasCompound(AminoAcidCompound) - Method in class org.biojava3.core.sequence.compound.AminoAcidCompoundSet

hasGaps(int) - Method in class org.biojava3.genome.parsers.gff.FeatureList

Check size of gaps between successive features in list.

hash(int, boolean) - Static method in class org.biojava3.core.util.Hashcoder

hash(int, char) - Static method in class org.biojava3.core.util.Hashcoder

hash(int, double) - Static method in class org.biojava3.core.util.Hashcoder

double support which is done using the same techinque as float hashing except we convert to a long not to an int.

hash(int, float) - Static method in class org.biojava3.core.util.Hashcoder

float support done via Float.floatToIntBits(float) which allows the encoding of a float as an int.

hash(int, int) - Static method in class org.biojava3.core.util.Hashcoder

Used for ints, bytes and shorts

hash(int, long) - Static method in class org.biojava3.core.util.Hashcoder

long support done by shifting by 32 (using unsigned shift)

hash(int, Object) - Static method in class org.biojava3.core.util.Hashcoder

o is a possibly-null object field, and possibly an array.

hashCode() - Method in class org.biojava3.core.sequence.AccessionID

hashCode() - Method in class org.biojava3.core.sequence.compound.AminoAcidCompound

hashCode() - Method in class org.biojava3.core.sequence.compound.CodonCompound

hashCode() - Method in class org.biojava3.core.sequence.compound.NucleotideCompound

hashCode() - Method in class org.biojava3.core.sequence.location.FuzzyPoint

hashCode() - Method in class org.biojava3.core.sequence.location.SimplePoint

hashCode() - Method in class org.biojava3.core.sequence.location.template.AbstractLocation

hashCode() - Method in class org.biojava3.core.sequence.storage.ArrayListSequenceReader

hashCode() - Method in class org.biojava3.core.sequence.storage.BitSequenceReader.BitArrayWorker

hashCode() - Method in class org.biojava3.core.sequence.storage.BitSequenceReader

hashCode() - Method in class org.biojava3.core.sequence.storage.SingleCompoundSequenceReader

hashCode() - Method in class org.biojava3.core.sequence.template.AbstractCompound

hashCode() - Method in class org.biojava3.core.sequence.template.AbstractCompoundSet

hashCode() - Method in class org.biojava3.core.sequence.transcription.CaseInsensitiveCompound

hashCode() - Method in class org.biojava3.core.sequence.transcription.Table.CaseInsensitiveTriplet

hashCode() - Method in class org.biojava3.core.sequence.transcription.Table.Codon

Hashcoder - Class in org.biojava3.core.util

Contains helper methods for generating a HashCode without having to resort to the commons lang hashcode builders.

Hashcoder() - Constructor for class org.biojava3.core.util.Hashcoder

hasNext() - Method in class bacnet.scripts.core.vennDiagram.CombinationGenerator

hasNext() - Method in class bacnet.utils.CombinationGenerator

hasNext() - Method in class org.biojava3.core.sequence.template.SequenceMixin.SequenceIterator

hasNext() - Method in class org.biojava3.genome.parsers.gff.LocIterator

Check if next window of default size is available.

hasNext(int, int) - Method in class org.biojava3.genome.parsers.gff.LocIterator

Check if next window of specified size is available.

HEADER - Static variable in class bacnet.datamodel.annotation.Annotation

HeaderParseException - Error in org.biojava3.core.exceptions

Currently not used

HeaderParseException(String) - Constructor for error org.biojava3.core.exceptions.HeaderParseException

HEATMAP_NAME - Static variable in class bacnet.expressionAtlas.HeatMapMultiOmicsView

HeatMapMultiOmicsView - Class in bacnet.expressionAtlas

HeatMapMultiOmicsView() - Constructor for class bacnet.expressionAtlas.HeatMapMultiOmicsView

HeatMapMultiOmicsView.InitOmicsMatrixThread - Class in bacnet.expressionAtlas

HeatMapProteomicsExpressionView - Class in bacnet.expressionAtlas

HeatMapProteomicsExpressionView() - Constructor for class bacnet.expressionAtlas.HeatMapProteomicsExpressionView

HeatMapProteomicsView - Class in bacnet.expressionAtlas

HeatMapProteomicsView() - Constructor for class bacnet.expressionAtlas.HeatMapProteomicsView

HeatMapTranscriptomicsView - Class in bacnet.expressionAtlas

HeatMapTranscriptomicsView() - Constructor for class bacnet.expressionAtlas.HeatMapTranscriptomicsView

HEIGHT_BPPOSITION - Static variable in class bacnet.genomeBrowser.tracksGUI.TrackCanvasGenome

Height of the bp position track

HEIGHT_SEQUENCE - Static variable in class bacnet.genomeBrowser.tracksGUI.TrackCanvasData

Height of the sequence track (when displayed)

helpGeneView(EPartService) - Static method in class bacnet.views.HelpPage

helpGenomeView(EPartService) - Static method in class bacnet.views.HelpPage

helpGenomeViewer(EPartService) - Static method in class bacnet.views.HelpPage

helpNetworkView(EPartService) - Static method in class bacnet.views.HelpPage

HelpPage - Class in bacnet.views

HelpPage() - Constructor for class bacnet.views.HelpPage

helpProteomHeatMapViewer(EPartService) - Static method in class bacnet.views.HelpPage

helpProteomicView(EPartService) - Static method in class bacnet.views.HelpPage

helpSrnaView(EPartService) - Static method in class bacnet.views.HelpPage

helpSubmit(EPartService) - Static method in class bacnet.views.HelpPage

helpTrancriptomicView(EPartService) - Static method in class bacnet.views.HelpPage

helpTranscriptHeatMapViewer(EPartService) - Static method in class bacnet.views.HelpPage

HideExpressionMatrixDialog - Class in bacnet.table.gui

HideExpressionMatrixDialog(ExpressionMatrix, Genome, ArrayList<String>, ArrayList<String>, Shell, EPartService) - Constructor for class bacnet.table.gui.HideExpressionMatrixDialog

Create the dialog.

hideInfoPanel() - Method in class bacnet.genomeBrowser.tracksGUI.TracksComposite

Hide the info Panel showing NTerm data

hidePhylogeny(Phylogeny, TreeSet<Integer>) - Static method in class bacnet.scripts.phylogeny.PhylogenyToolsJolley

If a node of the Phylogeny phy, is include in listIDs, hide it by setting the name to void

hit_accession - Variable in class bacnet.scripts.blast.BlastResult

hit_def - Variable in class bacnet.scripts.blast.BlastResult

hit_id - Variable in class bacnet.scripts.blast.BlastResult

HOMOLOG_SUMMARY - Static variable in class bacnet.datamodel.phylogeny.Phylogenomic

HomologCreation - Class in bacnet.scripts.database

HomologCreation() - Constructor for class bacnet.scripts.database.HomologCreation

hSequence - Variable in class bacnet.scripts.blast.BlastResult

HTML_URL_ARRAY - Static variable in class bacnet.scripts.arrayexpress.ArrayExpressTechnology

HTML_URL_ARRAY - Static variable in class bacnet.scripts.listeriomics.ArrayExpress.ArrayExpressTechnology

HTML_URL_EXP - Static variable in class bacnet.scripts.arrayexpress.ArrayExpressTechnology

HTML_URL_EXP - Static variable in class bacnet.scripts.listeriomics.ArrayExpress.ArrayExpressTechnology

HTMLUtils - Class in bacnet.utils

List of methods to manage D3js visualization in BACNET

HTMLUtils() - Constructor for class bacnet.utils.HTMLUtils

hybrid_min - Static variable in class bacnet.scripts.core.UNAfold

hybrid_min - Static variable in class bacnet.utils.UNAfold

hybrid_ss - Static variable in class bacnet.scripts.core.UNAfold

hybrid_ss - Static variable in class bacnet.utils.UNAfold

hybrid_ss_min - Static variable in class bacnet.scripts.core.UNAfold

hybrid_ss_min - Static variable in class bacnet.utils.UNAfold

hybridRNA(String, String, String, String, boolean) - Static method in class bacnet.scripts.core.UNAfold

hybridRNA(String, String, String, String, boolean) - Static method in class bacnet.utils.UNAfold

A B C D E F G H I J L M N O P Q R S T U V W X Y Z
All Classes and Interfaces|All Packages|Constant Field Values|Serialized Form