Bioconductor Topics

Browse 499 topics across software, annotation, experiment, and workflow packages.

Back to packages

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)

Bacillus_subtilis(2)

Caenorhabditis_elegans(12)

Callithrix_jacchus(2)

Canis_familiaris(16)

Chlamydomonas_reinhardtii(1)

Cicer_arietinum(1)

Ciona_intestinalis(0)

Danio_rerio(15)

Drosophila_melanogaster(17)

Drosophila_virilis(1)

Eremothecium_gossypii(0)

Escherichia_coli(12)

Gallus_gallus(14)

Gasterosteus_aculeatus(2)

Homo_sapiens(259)

Hordeum_vulgare(2)

Kluyveromyces_lactis(0)

Macaca_fascicularis(2)

Macaca_mulatta(12)

Magnaporthe_grisea(0)

Medicago_truncatula(0)

Monodelphis_domestica(1)

Mus_musculus(117)

Neurospora_crassa(0)

Oncorhynchus_mykiss(0)

Oryza_sativa(1)

Pan_paniscus(2)

Pan_troglodytes(11)

Plasmodium_falciparum(4)

Pseudomonas_aeruginosa(2)

Rattus_norvegicus(78)

Saccharomyces_cerevisiae(18)

Saccharum_officinarum(2)

Schizosaccharomyces_pombe(0)

Staphylococcus_aureus(2)

Taeniopygia_guttata(3)

Toxoplasma_gondii(1)

Triticum_aestivum(0)

Vitis_vinifera(5)

Xenopus_laevis(3)

Xenopus_tropicalis(1)

PackageType(655)

AnnotationHub(43)

FRMA(12)

InparanoidDb(0)

TxDb(50)

cdf(118)

db0(19)

SequenceAnnotation(5)

GenomicSequence(5)

ExperimentData(430)

AssayDomainData(107)

CopyNumberVariationData(4)

CpGIslandData(2)

ExpressionData(89)

DiseaseModel(97)

BreastCancerData(18)

ColonCancerData(8)

KidneyCancerData(3)

LeukemiaCancerData(8)

LungCancerData(8)

OvarianCancerData(3)

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)

Danio_rerio_Data(4)

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)

Saccharum_officinarum_Data(0)

Schizosaccharomyces_pombe_Data(0)

Staphylococcus_aureus_Data(2)

Sus_scrofa_Data(0)

Taeniopygia_guttata_Data(0)

Triticum_aestivum_Data(0)

Vitis_vinifera_Data(0)

Xenopus_laevis_Data(0)

Xenopus_tropicalis_Data(0)

Zea_mays_Data(0)

PackageTypeData(120)

ExperimentHub(115)

ImmunoOncologyData(5)

RepositoryData(98)

ArrayExpress(14)

GEO(65)

NCI(9)

PathwayInteractionDatabase(2)

Project1000genomes(3)

ReproducibleResearch(38)

SpecimenSource(126)

CellCulture(13)

TechnologyData(316)

FlowCytometryData(5)

HighThroughputImagingData(4)

MassSpectrometryData(26)

ImagingMassSpectrometryData(1)

MicroarrayData(132)

ChipOnChipData(11)

GenotypingArrayData(0)

MethylationArrayData(24)

MicroRNAArrayData(0)

MultiChannelData(1)

OneChannelData(3)

ProprietaryPlatformsData(0)

ReversePhaseProteinArrayData(0)

TissueMicroarrayData(17)

TwoChannelData(5)

mRNAArrayData(0)

MicrotitrePlateAssayData(1)

SequencingData(169)

ChIPSeqData(17)

ExomeSeqData(0)

MethylSeqData(2)

MicrobiomeData(12)

SangerSeqData(0)

SingleCellData(41)

SmallRNAData(1)

SpatialData(13)

Software(2,618)

AssayDomain(970)

CellBasedAssays(67)

CopyNumberVariation(66)

DNAMethylation(121)

GeneExpression(643)

GeneticVariability(41)

SNP(90)

Transcription(186)

BiologicalQuestion(1,034)

AlternativeSplicing(51)

DNA3DStructure(13)

DemethylateRegionDetection(0)

DenovoAssembler(0)

DifferentialDNA3DStructure(0)

DifferentialExpression(400)

DifferentialMethylation(63)

DifferentialPeakCalling(16)

DifferentialSplicing(38)

DriverMutation(2)

FunctionalPrediction(36)

GeneFusionDetection(2)

GenePrediction(28)

GeneRegulation(119)

GeneSetEnrichment(173)

GeneSignaling(13)

GenomeAnnotation(55)

GenomeAssembly(13)

GenomeWideAssociation(34)

GenomicVariation(42)

GermlineMutation(1)

HistoneModification(11)

IndelDetection(2)

LinkageDisequilibrium(5)

MetagenomeAssembly(0)

MicrosatelliteDetection(0)

MotifAnnotation(26)

MotifDiscovery(15)

NetworkEnrichment(52)

NetworkInference(62)

NucleosomePositioning(10)

PeakDetection(24)

QuantitativeTrailLocus(0)

SequenceMatching(55)

SomaticMutation(25)

SplicedAlignment(6)

StructuralVariation(3)

TranscriptomeVariant(6)

VariantAnnotation(35)

VariantDetection(13)

Infrastructure(615)

DataImport(349)

DataRepresentation(162)

GPU(1)

GUI(68)

ResearchField(1,389)

Agroinformatics(0)

BiomedicalInformatics(87)

CellBiology(69)

Cheminformatics(19)

ComparativeGenomics(13)

ComputationalChemistry(0)

Epigenetics(108)

Epitranscriptomics(4)

FunctionalGenomics(107)

Immunology(426)

ImmunoOncology(426)

ImmunoPrevention(0)

Immunogenetics(1)

MathematicalBiology(10)

Metabolomics(124)

Metagenomics(38)

Pharmacogenetics(16)

Pharmacogenomics(19)

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)

ExonArray

11 packages (topic tree: 12)

Open in full browser

Package	Category	Version	Status
PECABioc Probe-level Expression Change Averaging	software	1.48.0	current
TINBioc Transcriptome instability analysis	software	1.44.0	current
asuriBioc Analysis of SUrvival and RIsk prediction in patients based on gene signatures	software	1.0.0	current
globalSeqBioc Global Test for Counts	software	1.40.0	current
limmaBioc Linear Models for Microarray and Omics Data	software	3.68.4	current
oligoBioc Preprocessing tools for oligonucleotide arrays	software	1.76.0	current
pumaBioc Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and exon arrays and Human Transcriptome Array 2.0)	software	3.54.0	current
regspliceBioc L1-regularization based methods for detection of differential splicing	software	1.38.0	current
roastgsaBioc Rotation based gene set analysis	software	1.10.0	current
siggenesBioc Multiple Testing using SAM and Efron's Empirical Bayes Approaches	software	1.86.0	current
snmBioc Supervised Normalization of Microarrays	software	1.60.0	current