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Release: Showing tree for 3.23

AnnotationData(938)

ChipManufacturer(404)

AffymetrixChip(342)

AgilentChip(17)

ClonetechChip(0)

CodelinkChip(12)

IlluminaChip(29)

UniversityHealthNetwork(0)

JazaerimetaData(0)

OperonHumanV3(1)

PartheenMetaData(1)

Roberts2005Annotation(1)

ag(3)

hs25kresogen(1)

illuminaHumanv1(1)

illuminaHumanv2(1)

illuminaMousev1(1)

illuminaMousev1p1(1)

illuminaRatv1(1)

mm24kresogen(1)

pedbarrayv10(1)

xenopuslaevis(2)

MBNICustomCDF(0)

CustomDBSchema(10)

GeneCardsCustomSchema(0)

FunctionalAnnotation(30)

Anopheles_gambiae(4)

Apis_mellifera(4)

Arabidopsis_lyrata(0)

Arabidopsis_thaliana(15)

Asparagus_officinalis(1)

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Mus_musculus(117)

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Xenopus_laevis(3)

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PackageType(655)

AnnotationHub(43)

FRMA(12)

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TxDb(50)

cdf(118)

db0(19)

SequenceAnnotation(5)

GenomicSequence(5)

ExperimentData(430)

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ExpressionData(89)

DiseaseModel(97)

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ProstateCancerData(7)

OrganismData(165)

Anopheles_gambiae_Data(0)

Apis_mellifera_Data(0)

Arabidopsis_lyrata_Data(0)

Arabidopsis_thaliana_Data(6)

Bacillus_subtilis_Data(2)

Bos_taurus_Data(0)

Caenorhabditis_elegans_Data(2)

Callithrix_jacchus_Data(0)

Canis_familiaris_Data(0)

Ciona_intestinalis_Data(0)

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Drosophila_melanogaster_Data(8)

Drosophila_virilis_Data(0)

Eremothecium_gossypii_Data(0)

Escherichia_coli_Data(4)

Gallus_gallus_Data(0)

Gasterosteus_aculeatus_Data(0)

Glycine_max_Data(0)

Homo_sapiens_Data(123)

Hordeum_vulgare_Data(0)

Kluyveromyces_lactis_Data(0)

Macaca_mulatta_Data(0)

Magnaporthe_grisea_Data(0)

Medicago_truncatul_Data(0)

Monodelphis_domestica_Data(0)

Mus_musculus_Data(31)

Neurospora_crassa_Data(0)

Oncorhynchus_mykiss_Data(0)

Oryza_sativa_Data(0)

Pan_paniscus_Data(0)

Pan_troglodytes_Data(2)

Plasmodium_falciparum_Data(0)

Pseudomonas_aeruginosa_Data(2)

Rattus_norvegicus_Data(6)

Saccharomyces_cerevisiae_Data(12)

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Schizosaccharomyces_pombe_Data(0)

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Sus_scrofa_Data(0)

Taeniopygia_guttata_Data(0)

Triticum_aestivum_Data(0)

Vitis_vinifera_Data(0)

Xenopus_laevis_Data(0)

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Zea_mays_Data(0)

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ExperimentHub(115)

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Software(2,618)

AssayDomain(970)

CellBasedAssays(67)

CopyNumberVariation(66)

DNAMethylation(121)

GeneExpression(643)

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SNP(90)

Transcription(186)

BiologicalQuestion(1,034)

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FunctionalPrediction(36)

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GenomicVariation(42)

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IndelDetection(2)

LinkageDisequilibrium(5)

MetagenomeAssembly(0)

MicrosatelliteDetection(0)

MotifAnnotation(26)

MotifDiscovery(15)

NetworkEnrichment(52)

NetworkInference(62)

NucleosomePositioning(10)

PeakDetection(24)

QuantitativeTrailLocus(0)

SequenceMatching(55)

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SplicedAlignment(6)

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Infrastructure(615)

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GPU(1)

GUI(68)

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Phylogenetics(16)

Proteomics(193)

StructuralGenomics(1)

StructuralPrediction(12)

SystemsBiology(100)

Transcriptomics(298)

StatisticalMethod(884)

Classification(188)

Clustering(296)

DecisionTree(8)

DimensionReduction(94)

FeatureExtraction(68)

GraphAndNetwork(131)

HiddenMarkovModel(16)

MultidimensionalScaling(5)

NeuralNetwork(5)

PatternLogic(3)

PrincipalComponent(59)

Regression(156)

StructuralEquationModels(1)

SupportVectorMachine(11)

Technology(1,611)

AnnotationHubSoftware(5)

ExperimentHubSoftware(11)

FlowCytometry(72)

MassSpectrometry(154)

ImagingMassSpectrometry(3)

Microarray(399)

GenotypingArray(2)

MethylationArray(46)

MicroRNAArray(5)

MultiChannel(7)

ProprietaryPlatforms(11)

ReversePhaseProteinArray(0)

TissueMicroarray(2)

mRNAMicroarray(24)

MicrotitrePlateAssay(14)

Sequencing(938)

DenovoGenome(0)

DenovoTranscriptome(0)

HiC(36)

MicrobialStrain(1)

PooledScreens(6)

TargetedResequencing(6)

WholeGenome(40)

SingleCell(346)

qPCR(13)

WorkflowManagement(1)

WorkflowStep(1,321)

MultipleSequenceAlignment(19)

Annotation(152)

BatchEffect(76)

ExperimentalDesign(34)

GenomeBrowsers(2)

MultipleComparison(184)

Normalization(188)

GO(76)

KEGG(55)

NCINatureCurated(0)

Preprocessing(276)

QualityControl(245)

ReportWriting(39)

Visualization(614)

AnnotationWorkflow(4)

BasicWorkflow(5)

DifferentialSplicingWorkflow(0)

EpigeneticsWorkflow(6)

GeneExpressionWorkflow(13)

GenomicVariantsWorkflow(0)

ImmunoOncologyWorkflow(20)

ProteomicsWorkflow(1)

ResourceQueryingWorkflow(2)

SingleCellWorkflow(10)

SpatialWorkflow(1)

FunctionalAnnotation

29 packages (topic tree: 30)

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Package	Category	Version	Status
AHLRBaseDbsBioc LRBaseDbs for AnnotationHub	annotation	1.8.0	current
AHMeSHDbsBioc MeSHDbs for AnnotationHub	annotation	1.8.0	current
AHPathbankDbsBioc Metabolites and proteins linked to PathBank pathways (for AnnotationHub)	annotation	0.99.5	current
AHWikipathwaysDbsBioc Metabolites linked to WikiPathways pathways (for AnnotationHub)	annotation	0.99.4	current
CTCFBioc Genomic coordinates of CTCF binding sites, with orientation	annotation	0.99.14	current
DO.dbBioc A set of annotation maps describing the entire Disease Ontology	annotation	2.9	current
GO.dbBioc A set of annotation maps describing the entire Gene Ontology	annotation	3.23.1	current
HDO.dbBioc A set of annotation maps describing the entire Human Disease Ontology	annotation	1.0.0	current
HPO.dbBioc A set of annotation maps describing the entire Human Phenotype Ontology	annotation	0.99.2	current
JASPAR2018Bioc Data package for JASPAR 2018	annotation	1.1.1	current
JASPAR2020Bioc Data package for JASPAR database (version 2020)	annotation	0.99.10	current
JASPAR2022Bioc Data package for JASPAR database (version 2022)	annotation	0.99.8	current
JASPAR2024Bioc Data package for JASPAR database (version 2024)	annotation	0.99.7	current
LowMACAAnnotationBioc LowMACAAnnotation	annotation	0.99.3	current
MPO.dbBioc A set of annotation maps describing the Mouse Phenotype Ontology	annotation	0.99.8	current
Orthology.eg.dbBioc Orthology mapping package	annotation	3.23.0	current
excluderangesBioc Genomic coordinates of problematic genomic regions	annotation	0.99.11	current
geneplast.data.string.v91Bioc Input data for the geneplast package	annotation	0.99.6	current
hpAnnotBioc Anotation package for Hipathia package	annotation	1.1.3	current
humanCHRLOCBioc A data package containing annotation data for humanCHRLOC	annotation	2.1.6	current
meshrBioc Tools for conducting enrichment analysis of MeSH	software	2.18.0	current
metaboliteIDmappingBioc Mapping of Metabolite IDs from Different Sources	annotation	1.0.0	current
mouseCHRLOCBioc A data package containing annotation data for mouseCHRLOC	annotation	2.1.6	current
rGenomeTracksDataBioc Demonstration Data from rGenomeTracks Package	annotation	0.99.0	current
ratCHRLOCBioc A data package containing annotation data for ratCHRLOC	annotation	2.1.6	current
reactome.dbBioc A set of annotation maps for reactome	annotation	1.96.0	current
scAnnotatR.modelsBioc Pretrained models for scAnnotatR package	annotation	0.99.10	current
synaptome.dataBioc AnnotationData for Synaptome.DB package	annotation	0.99.6	current
synaptome.dbBioc Synamptosome Proteome Database	annotation	0.99.17	current