bioconductor.org "BiomedicalInformatics" keyword
View the packages on the bioconductor.org package registry that are tagged with the "BiomedicalInformatics" keyword.
Top 0.6% on bioconductor.org
26 versions - Latest release: 8 days ago - 181 dependent packages - 4.18 million downloads total - 4 maintainers
edgeR 4.8.2
Empirical Analysis of Digital Gene Expression Data in R26 versions - Latest release: 8 days ago - 181 dependent packages - 4.18 million downloads total - 4 maintainers
Top 0.3% on bioconductor.org
16 versions - Latest release: 2 months ago - 322 dependent packages - 6.83 million downloads total - 1 maintainer
limma 3.66.0
Linear Models for Microarray and Omics Data16 versions - Latest release: 2 months ago - 322 dependent packages - 6.83 million downloads total - 1 maintainer
Top 2.4% on bioconductor.org
6 versions - Latest release: about 1 month ago - 2 dependent packages - 299 thousand downloads total - 1 maintainer
DiffBind 3.20.0
Differential Binding Analysis of ChIP-Seq Peak Data6 versions - Latest release: about 1 month ago - 2 dependent packages - 299 thousand downloads total - 1 maintainer
immunotation 1.18.0
Tools for working with diverse immune genes7 versions - Latest release: about 1 month ago - 9.1 thousand downloads total - 8 stars on GitHub - 1 maintainer
Pigengene 1.35.0
Infers biological signatures from gene expression data6 versions - Latest release: about 1 month ago - 1 dependent package - 20.6 thousand downloads total - 1 maintainer
mdp 1.30.0
Molecular Degree of Perturbation calculates scores for transcriptome data samples based on their ...6 versions - Latest release: about 1 month ago - 14.8 thousand downloads total - 1 maintainer
rScudo 1.26.0
Signature-based Clustering for Diagnostic Purposes7 versions - Latest release: about 2 months ago - 11.5 thousand downloads total - 4 stars on GitHub - 1 maintainer
notameViz 1.0.0
Workflow for non-targeted LC-MS metabolic profiling1 version - Latest release: 2 months ago - 611 downloads total - 0 stars on GitHub - 1 maintainer
notameStats 1.0.0
Workflow for non-targeted LC-MS metabolic profiling1 version - Latest release: 2 months ago - 329 downloads total - 0 stars on GitHub - 1 maintainer
batchCorr 1.0.0
Within And Between Batch Correction Of LC-MS Metabolomics Data1 version - Latest release: 2 months ago - 915 downloads total - 0 stars on GitHub - 1 maintainer
rexposome 1.32.0
Exposome exploration and outcome data analysis6 versions - Latest release: about 1 month ago - 1 dependent package - 18.5 thousand downloads total - 1 maintainer
CTDquerier 2.18.0
Package for CTDbase data query, visualization and downstream analysis6 versions - Latest release: about 1 month ago - 12.4 thousand downloads total - 1 maintainer
gwasurvivr 1.28.0
gwasurvivr: an R package for genome wide survival analysis6 versions - Latest release: about 1 month ago - 16.5 thousand downloads total - 13 stars on GitHub - 1 maintainer
TRONCO 2.42.0
TRONCO, an R package for TRanslational ONCOlogy7 versions - Latest release: about 1 month ago - 24.7 thousand downloads total - 1 maintainer
miRspongeR 2.14.0
Identification and analysis of miRNA sponge regulation7 versions - Latest release: about 1 month ago - 1 dependent package - 11.3 thousand downloads total - 5 stars on GitHub - 1 maintainer
MEAT 1.22.0
Muscle Epigenetic Age Test6 versions - Latest release: about 1 month ago - 10.3 thousand downloads total - 0 stars on GitHub - 1 maintainer
microSTASIS 1.10.0
Microbiota STability ASsessment via Iterative cluStering6 versions - Latest release: about 1 month ago - 5.61 thousand downloads total - 1 maintainer
easier 1.16.0
Estimate Systems Immune Response from RNA-seq data6 versions - Latest release: about 1 month ago - 10.7 thousand downloads total - 1 maintainer
mistyR 1.18.0
Multiview Intercellular SpaTial modeling framework7 versions - Latest release: about 1 month ago - 11.8 thousand downloads total - 44 stars on GitHub - 1 maintainer
Top 5.7% on bioconductor.org
6 versions - Latest release: about 1 month ago - 1 dependent package - 73.4 thousand downloads total - 1 maintainer
flowAI 1.40.0
Automatic and interactive quality control for flow cytometry data6 versions - Latest release: about 1 month ago - 1 dependent package - 73.4 thousand downloads total - 1 maintainer
OncoScore 1.38.0
A tool to identify potentially oncogenic genes6 versions - Latest release: about 1 month ago - 17 thousand downloads total - 5 stars on GitHub - 1 maintainer
TENET 1.2.0
R package for TENET (Tracing regulatory Element Networks using Epigenetic Traits) to identify key...3 versions - Latest release: about 1 month ago - 2.08 thousand downloads total - 1 stars on GitHub - 1 maintainer
geneClassifiers 1.34.0
Application of gene classifiers6 versions - Latest release: about 1 month ago - 14.9 thousand downloads total - 1 maintainer
sitadela 1.18.0
An R package for the easy provision of simple but complete tab-delimited genomic annotation from ...6 versions - Latest release: about 1 month ago - 7.74 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 6.3% on bioconductor.org
6 versions - Latest release: about 1 month ago - 8 dependent packages - 526 thousand downloads total - 16 stars on GitHub - 1 maintainer
ChemmineR 3.62.0
Cheminformatics Toolkit for R6 versions - Latest release: about 1 month ago - 8 dependent packages - 526 thousand downloads total - 16 stars on GitHub - 1 maintainer
sincell 1.42.0
R package for the statistical assessment of cell state hierarchies from single-cell RNA-seq data6 versions - Latest release: about 1 month ago - 22.6 thousand downloads total - 1 maintainer
gCrisprTools 2.16.0
Suite of Functions for Pooled Crispr Screen QC and Analysis6 versions - Latest release: about 1 month ago - 18.4 thousand downloads total - 1 maintainer
betaHMM 1.6.0
A Hidden Markov Model Approach for Identifying Differentially Methylated Sites and Regions for Be...6 versions - Latest release: about 1 month ago - 4.74 thousand downloads total - 1 maintainer
iNETgrate 1.7.0
Integrates DNA methylation data with gene expression in a single gene network5 versions - Latest release: about 1 month ago - 5.22 thousand downloads total - 65 stars on GitHub - 1 maintainer
pfamAnalyzeR 1.10.0
Identification of domain isotypes in pfam data6 versions - Latest release: about 1 month ago - 1 dependent package - 15 thousand downloads total - 1 stars on GitHub - 1 maintainer
GenomicOZone 1.24.0
Delineate outstanding genomic zones of differential gene activity6 versions - Latest release: about 1 month ago - 10.9 thousand downloads total - 1 maintainer
cfTools 1.10.0
Informatics Tools for Cell-Free DNA Study6 versions - Latest release: about 1 month ago - 5.81 thousand downloads total - 6 stars on GitHub - 1 maintainer
MouseFM 1.20.0
In-silico methods for genetic finemapping in inbred mice7 versions - Latest release: about 1 month ago - 11.4 thousand downloads total - 0 stars on GitHub - 1 maintainer
OMICsPCA 1.28.0
An R package for quantitative integration and analysis of multiple omics assays from heterogeneou...6 versions - Latest release: about 1 month ago - 15.8 thousand downloads total - 1 maintainer
IsoformSwitchAnalyzeR 2.10.0
Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- a...6 versions - Latest release: about 1 month ago - 48.4 thousand downloads total - 1 maintainer
netboost 2.18.0
Network Analysis Supported by Boosting6 versions - Latest release: about 1 month ago - 10.1 thousand downloads total - 1 maintainer
artMS 1.28.0
Analytical R tools for Mass Spectrometry6 versions - Latest release: about 1 month ago - 15.9 thousand downloads total - 1 maintainer
simona 1.8.0
Semantic Similarity on Bio-Ontologies7 versions - Latest release: about 1 month ago - 17.4 thousand downloads total - 17 stars on GitHub - 1 maintainer
GAprediction 1.36.0
Prediction of gestational age with Illumina HumanMethylation450 data6 versions - Latest release: about 1 month ago - 14.4 thousand downloads total - 1 maintainer
powerTCR 1.30.0
Model-Based Comparative Analysis of the TCR Repertoire6 versions - Latest release: about 1 month ago - 1 dependent package - 43.5 thousand downloads total - 1 maintainer
roastgsa 1.8.0
Rotation based gene set analysis5 versions - Latest release: about 1 month ago - 5.24 thousand downloads total - 0 stars on GitHub - 1 maintainer
dearseq 1.22.0
Differential Expression Analysis for RNA-seq data through a robust variance component test6 versions - Latest release: about 1 month ago - 2 dependent packages - 18.9 thousand downloads total - 6 stars on GitHub - 1 maintainer
faers 1.6.0
R interface for FDA Adverse Event Reporting System5 versions - Latest release: about 2 months ago - 6.29 thousand downloads total - 1 maintainer
metaseqR2 1.22.0
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statisti...6 versions - Latest release: about 1 month ago - 11.5 thousand downloads total - 1 maintainer
IgGeneUsage 1.24.0
Differential gene usage in immune repertoires6 versions - Latest release: about 1 month ago - 6 stars on GitHub - 1 maintainer
SPIAT 1.12.0
Spatial Image Analysis of Tissues10 versions - Latest release: about 2 months ago - 10.4 thousand downloads total - 24 stars on GitHub - 1 maintainer
ssPATHS 1.24.0
ssPATHS: Single Sample PATHway Score6 versions - Latest release: about 1 month ago - 9.78 thousand downloads total - 1 maintainer
spaSim 1.12.0
Spatial point data simulator for tissue images6 versions - Latest release: about 2 months ago - 6.8 thousand downloads total - 2 stars on GitHub - 1 maintainer
VERSO 1.20.0
Viral Evolution ReconStructiOn (VERSO)6 versions - Latest release: about 1 month ago - 8.57 thousand downloads total - 7 stars on GitHub - 1 maintainer
GRaNIE 1.14.0
GRaNIE: Reconstruction cell type specific gene regulatory networks including enhancers using sing...6 versions - Latest release: about 1 month ago - 9.43 thousand downloads total - 1 maintainer
ZygosityPredictor 1.10.0
Package for prediction of zygosity for variants/genes in NGS data6 versions - Latest release: about 1 month ago - 5.7 thousand downloads total - 1 maintainer
messina 1.46.0
Single-gene classifiers and outlier-resistant detection of differential expression for two-group ...6 versions - Latest release: about 1 month ago - 22.1 thousand downloads total - 1 maintainer
timescape 1.34.0
Patient Clonal Timescapes6 versions - Latest release: about 1 month ago - 16.7 thousand downloads total - 1 maintainer
MOGAMUN 1.20.0
MOGAMUN: A Multi-Objective Genetic Algorithm to Find Active Modules in Multiplex Biological Networks6 versions - Latest release: about 2 months ago - 9.38 thousand downloads total - 12 stars on GitHub - 1 maintainer
fobitools 1.18.0
Tools for Manipulating the FOBI Ontology6 versions - Latest release: about 2 months ago - 8.47 thousand downloads total - 1 stars on GitHub - 1 maintainer
decompTumor2Sig 2.26.0
Decomposition of individual tumors into mutational signatures by signature refitting6 versions - Latest release: about 2 months ago - 1 dependent package - 16.6 thousand downloads total - 1 maintainer
ClustIRR 1.8.0
Clustering of immune receptor repertoires5 versions - Latest release: about 2 months ago - 5.54 thousand downloads total - 4 stars on GitHub - 1 maintainer
oppti 1.24.0
Outlier Protein and Phosphosite Target Identifier6 versions - Latest release: about 2 months ago - 8.28 thousand downloads total - 2 stars on GitHub - 1 maintainer
RESOLVE 1.12.0
RESOLVE: An R package for the efficient analysis of mutational signatures from cancer genomes6 versions - Latest release: about 1 month ago - 6.26 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 3.0% on bioconductor.org
6 versions - Latest release: about 1 month ago - 2 dependent packages - 238 thousand downloads total - 10 stars on GitHub - 1 maintainer
ChemmineOB 1.48.0
R interface to a subset of OpenBabel functionalities6 versions - Latest release: about 1 month ago - 2 dependent packages - 238 thousand downloads total - 10 stars on GitHub - 1 maintainer
ISAnalytics 1.20.0
Analyze gene therapy vector insertion sites data identified from genomics next generation sequenc...7 versions - Latest release: about 1 month ago - 9.19 thousand downloads total - 3 stars on GitHub - 1 maintainer
EWCE 1.18.0
Expression Weighted Celltype Enrichment7 versions - Latest release: about 1 month ago - 19.6 thousand downloads total - 53 stars on GitHub - 1 maintainer
ASAFE 1.36.0
Ancestry Specific Allele Frequency Estimation6 versions - Latest release: about 2 months ago - 16.9 thousand downloads total - 1 maintainer
LACE 2.14.0
Longitudinal Analysis of Cancer Evolution (LACE)7 versions - Latest release: about 2 months ago - 11.7 thousand downloads total - 15 stars on GitHub - 1 maintainer
ELViS 1.2.0
An R Package for Estimating Copy Number Levels of Viral Genome Segments Using Base-Resolution Rea...2 versions - Latest release: about 1 month ago - 2.25 thousand downloads total - 0 stars on GitHub - 1 maintainer
miRSM 2.6.0
Inferring miRNA sponge modules in heterogeneous data7 versions - Latest release: about 2 months ago - 11.9 thousand downloads total - 4 stars on GitHub - 1 maintainer
eiR 1.50.0
Accelerated similarity searching of small molecules6 versions - Latest release: about 2 months ago - 21.9 thousand downloads total - 3 stars on GitHub - 1 maintainer
SigsPack 1.24.0
Mutational Signature Estimation for Single Samples6 versions - Latest release: about 2 months ago - 10.1 thousand downloads total - 2 stars on GitHub - 1 maintainer
OPWeight 1.32.0
Optimal p-value weighting with independent information6 versions - Latest release: about 1 month ago - 22.5 thousand downloads total - 2 stars on GitHub - 1 maintainer
Top 7.2% on bioconductor.org
8 versions - Latest release: about 1 month ago - 1 dependent package - 41.9 thousand downloads total - 1 maintainer
Rcpi 1.46.0
Molecular Informatics Toolkit for Compound-Protein Interaction in Drug Discovery8 versions - Latest release: about 1 month ago - 1 dependent package - 41.9 thousand downloads total - 1 maintainer
RIVER 1.34.0
R package for RIVER (RNA-Informed Variant Effect on Regulation)6 versions - Latest release: about 2 months ago - 15.1 thousand downloads total - 10 stars on GitHub - 1 maintainer
drugTargetInteractions 1.18.0
Drug-Target Interactions6 versions - Latest release: about 2 months ago - 8.91 thousand downloads total - 1 stars on GitHub - 1 maintainer
SparseSignatures 2.20.0
SparseSignatures6 versions - Latest release: about 2 months ago - 14.2 thousand downloads total - 11 stars on GitHub - 1 maintainer
randRotation 1.22.0
Random Rotation Methods for High Dimensional Data with Batch Structure6 versions - Latest release: about 2 months ago - 8.74 thousand downloads total - 0 stars on GitHub - 1 maintainer
coRdon 1.28.0
Codon Usage Analysis and Prediction of Gene Expressivity6 versions - Latest release: about 2 months ago - 23.5 thousand downloads total - 23 stars on GitHub - 1 maintainer
signifinder 1.12.0
Collection and implementation of public transcriptional cancer signatures7 versions - Latest release: about 2 months ago - 5.82 thousand downloads total - 8 stars on GitHub - 1 maintainer
Top 6.1% on bioconductor.org
6 versions - Latest release: about 2 months ago - 1 dependent package - 67.3 thousand downloads total - 5 stars on GitHub - 1 maintainer
fmcsR 1.52.0
Mismatch Tolerant Maximum Common Substructure Searching6 versions - Latest release: about 2 months ago - 1 dependent package - 67.3 thousand downloads total - 5 stars on GitHub - 1 maintainer
frenchFISH 1.22.0
Poisson Models for Quantifying DNA Copy-number from FISH Images of Tissue Sections6 versions - Latest release: about 2 months ago - 8.38 thousand downloads total - 1 maintainer
SiPSiC 1.10.0
Calculate Pathway Scores for Each Cell in scRNA-Seq Data10 versions - Latest release: about 2 months ago - 5.6 thousand downloads total - 1 maintainer
islify 1.2.0
Automatic scoring and classification of cell-based assay images2 versions - Latest release: about 2 months ago - 1.99 thousand downloads total - 1 maintainer
notame 1.0.0
Workflow for non-targeted LC-MS metabolic profiling1 version - Latest release: 2 months ago - 534 downloads total - 3 stars on GitHub - 1 maintainer
protGear 1.14.0
Protein Micro Array Data Management and Interactive Visualization6 versions - Latest release: about 2 months ago - 8.9 thousand downloads total - 1 stars on GitHub - 1 maintainer
rmelting 1.26.0
R Interface to MELTING 56 versions - Latest release: about 2 months ago - 11.8 thousand downloads total - 2 stars on GitHub - 1 maintainer
psichomics 1.36.0
Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation7 versions - Latest release: 2 months ago - 20.9 thousand downloads total - 33 stars on GitHub - 1 maintainer
PhenoGeneRanker 1.18.0
PhenoGeneRanker: A gene and phenotype prioritization tool6 versions - Latest release: about 2 months ago - 7.02 thousand downloads total - 1 maintainer
RImmPort 1.38.0
RImmPort: Enabling Ready-for-analysis Immunology Research Data6 versions - Latest release: 2 months ago - 14.8 thousand downloads total - 2 maintainers
cbaf 1.32.0
Automated functions for comparing various omic data from cbioportal.org7 versions - Latest release: 2 months ago - 14.4 thousand downloads total - 1 maintainer
netDx 1.20.0 removed
Network-based patient classifier5 versions - Latest release: 8 months ago - 6.47 thousand downloads total - 1 maintainer
deco 1.18.0 removed
Decomposing Heterogeneous Cohorts using Omic Data Profiling2 versions - Latest release: about 2 years ago - 4.59 thousand downloads total - 4 stars on GitHub - 1 maintainer
proteasy 1.6.0 removed
Protease Mapping3 versions - Latest release: over 1 year ago - 1.34 thousand downloads total - 2 stars on GitHub - 1 maintainer
RandomWalkRestartMH 1.26.0 removed
Random walk with restart on multiplex and heterogeneous Networks4 versions - Latest release: about 1 year ago - 1 dependent package - 10.7 thousand downloads total - 22 stars on GitHub - 1 maintainer
GeneAccord 1.18.0 removed
Detection of clonally exclusive gene or pathway pairs in a cohort of cancer patients1 version - Latest release: about 2 years ago - 4.41 thousand downloads total - 2 stars on GitHub - 1 maintainer
psygenet2r 1.37.1 removed
psygenet2r - An R package for querying PsyGeNET and to perform comorbidity studies in psychiatric...5 versions - Latest release: about 1 year ago - 14.3 thousand downloads total - 1 maintainer
CancerInSilico 2.24.0 removed
An R interface for computational modeling of tumor progression3 versions - Latest release: over 1 year ago - 9.16 thousand downloads total - 2 maintainers
hummingbird 1.14.0
Bayesian Hidden Markov Model for the detection of differentially methylated regions3 versions - Latest release: over 1 year ago - 4.86 thousand downloads total - 1 maintainer
STROMA4 1.26.0 removed
Assign Properties to TNBC Patients3 versions - Latest release: about 2 years ago - 8.43 thousand downloads total - 1 maintainer
Related Keywords
Software
96
GeneExpression
31
Clustering
28
ImmunoOncology
28
SystemsBiology
28
RNASeq
25
DataImport
23
Transcriptomics
22
Visualization
22
Sequencing
21
DifferentialExpression
21
MultipleComparison
20
Genetics
20
FunctionalGenomics
19
Transcription
18
Normalization
17
Regression
17
GeneSetEnrichment
16
CellBiology
16
Proteomics
16
Microarray
16
Epigenetics
13
SingleCell
13
QualityControl
13
Metabolomics
13
Classification
12
Preprocessing
11
Pathways
11
Network
11
GraphAndNetwork
11
Bayesian
11
BatchEffect
11
Cheminformatics
10
SomaticMutation
10
DNAMethylation
9
Pharmacogenomics
8
Survival
8
GenePrediction
8
AlternativeSplicing
8
SNP
7
Infrastructure
7
DifferentialMethylation
7
Annotation
7
Spatial
6
MathematicalBiology
6
GenomicVariation
6
DataRepresentation
6
MassSpectrometry
6
NetworkInference
6
Pharmacogenetics
6
GeneTarget
6
DifferentialSplicing
6
GeneRegulation
6
TimeCourse
5
GeneticVariability
5
StatisticalMethod
5
KEGG
5
mRNAMicroarray
5
FunctionalPrediction
5
FeatureExtraction
5
DimensionReduction
5
r
5
CellBasedAssays
5
ChIPSeq
5
PrincipalComponent
4
bioinformatics
4
Coverage
4
MicrotitrePlateAssay
4
MicroRNAArray
4
OneChannel
4
HiddenMarkovModel
3
TranscriptomeVariant
3
bioconductor
3
MethylationArray
3
ExonArray
3
ReportWriting
3
DNASeq
3
MethylSeq
3
BiologicalQuestion
3
ATACSeq
3
ExperimentalDesign
3
GO
3
ProprietaryPlatforms
3
transcriptomics
2
CopyNumberVariation
2
GUI
2
PatternLogic
2
r-package
2
immunology
2
immunoinformatics
2
VariantAnnotation
2
clustering
2
differential-gene-expression
2
b-cell-receptor
2
WorkflowStep
2
cerna
2
mirna
2
HistoneModification
2
DecisionTree
2
NetworkEnrichment
2