bioconductor.org "BiomedicalInformatics" keyword
View the packages on the bioconductor.org package registry that are tagged with the "BiomedicalInformatics" keyword.
roastgsa 1.6.0
Rotation based gene set analysis4 versions - Latest release: 3 months ago - 4.06 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 0.3% on bioconductor.org
14 versions - Latest release: 2 months ago - 322 dependent packages - 5.97 million downloads total - 1 maintainer
limma 3.64.1
Linear Models for Microarray and Omics Data14 versions - Latest release: 2 months ago - 322 dependent packages - 5.97 million downloads total - 1 maintainer
Top 0.6% on bioconductor.org
23 versions - Latest release: 17 days ago - 181 dependent packages - 3.6 million downloads total - 4 maintainers
edgeR 4.6.3
Empirical Analysis of Digital Gene Expression Data in R23 versions - Latest release: 17 days ago - 181 dependent packages - 3.6 million downloads total - 4 maintainers
MOGAMUN 1.18.0
MOGAMUN: A Multi-Objective Genetic Algorithm to Find Active Modules in Multiplex Biological Networks5 versions - Latest release: 2 months ago - 7.53 thousand downloads total - 12 stars on GitHub - 1 maintainer
eiR 1.48.0
Accelerated similarity searching of small molecules5 versions - Latest release: 3 months ago - 20.1 thousand downloads total - 3 stars on GitHub - 1 maintainer
IgGeneUsage 1.22.0
Differential gene usage in immune repertoires5 versions - Latest release: 2 months ago - 8.87 thousand downloads total - 6 stars on GitHub - 1 maintainer
miRSM 2.4.0
Inferring miRNA sponge modules in heterogeneous data6 versions - Latest release: 3 months ago - 10.2 thousand downloads total - 4 stars on GitHub - 1 maintainer
ELViS 1.0.0
An R Package for Estimating Copy Number Levels of Viral Genome Segments Using Base-Resolution Rea...1 version - Latest release: 3 months ago - 1.18 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 6.3% on bioconductor.org
5 versions - Latest release: 2 months ago - 8 dependent packages - 503 thousand downloads total - 16 stars on GitHub - 1 maintainer
ChemmineR 3.60.0
Cheminformatics Toolkit for R5 versions - Latest release: 2 months ago - 8 dependent packages - 503 thousand downloads total - 16 stars on GitHub - 1 maintainer
RIVER 1.32.0
R package for RIVER (RNA-Informed Variant Effect on Regulation)5 versions - Latest release: 3 months ago - 13.5 thousand downloads total - 10 stars on GitHub - 1 maintainer
ClustIRR 1.6.0
Clustering of immune receptor repertoires4 versions - Latest release: 2 months ago - 4.31 thousand downloads total - 3 stars on GitHub - 1 maintainer
drugTargetInteractions 1.16.0
Drug-Target Interactions5 versions - Latest release: 2 months ago - 7.24 thousand downloads total - 1 stars on GitHub - 1 maintainer
betaHMM 1.4.1
A Hidden Markov Model Approach for Identifying Differentially Methylated Sites and Regions for Be...4 versions - Latest release: 2 months ago - 3.39 thousand downloads total - 1 maintainer
islify 1.0.0
Automatic scoring and classification of cell-based assay images1 version - Latest release: 3 months ago - 920 downloads total - 1 maintainer
simona 1.6.0
Semantic Similarity on Bio-Ontologies6 versions - Latest release: 2 months ago - 10.7 thousand downloads total - 17 stars on GitHub - 1 maintainer
MEAT 1.20.0
Muscle Epigenetic Age Test5 versions - Latest release: 2 months ago - 8.58 thousand downloads total - 0 stars on GitHub - 1 maintainer
ISAnalytics 1.18.0
Analyze gene therapy vector insertion sites data identified from genomics next generation sequenc...6 versions - Latest release: 3 months ago - 7.27 thousand downloads total - 3 stars on GitHub - 1 maintainer
protGear 1.12.0
Protein Micro Array Data Management and Interactive Visualization5 versions - Latest release: 3 months ago - 7.62 thousand downloads total - 1 stars on GitHub - 1 maintainer
netboost 2.16.0
Network Analysis Supported by Boosting5 versions - Latest release: 3 months ago - 8.54 thousand downloads total - 1 maintainer
signifinder 1.10.0
Collection and implementation of public transcriptional cancer signatures6 versions - Latest release: 3 months ago - 4.48 thousand downloads total - 7 stars on GitHub - 1 maintainer
TENET 1.0.1
R package for TENET (Tracing regulatory Element Networks using Epigenetic Traits) to identify key...2 versions - Latest release: about 2 months ago - 937 downloads total - 1 stars on GitHub - 1 maintainer
psichomics 1.34.0
Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation6 versions - Latest release: 3 months ago - 18.9 thousand downloads total - 33 stars on GitHub - 1 maintainer
MouseFM 1.18.0
In-silico methods for genetic finemapping in inbred mice6 versions - Latest release: 3 months ago - 9.91 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 3.0% on bioconductor.org
5 versions - Latest release: 3 months ago - 2 dependent packages - 231 thousand downloads total - 11 stars on GitHub - 1 maintainer
ChemmineOB 1.46.0
R interface to a subset of OpenBabel functionalities5 versions - Latest release: 3 months ago - 2 dependent packages - 231 thousand downloads total - 11 stars on GitHub - 1 maintainer
rScudo 1.24.0
Signature-based Clustering for Diagnostic Purposes6 versions - Latest release: 3 months ago - 9.68 thousand downloads total - 4 stars on GitHub - 1 maintainer
coRdon 1.26.0
Codon Usage Analysis and Prediction of Gene Expressivity5 versions - Latest release: 3 months ago - 19.2 thousand downloads total - 22 stars on GitHub - 1 maintainer
oppti 1.21.0
Outlier Protein and Phosphosite Target Identifier5 versions - Latest release: 3 months ago - 7.72 thousand downloads total - 2 stars on GitHub - 1 maintainer
SigsPack 1.22.0
Mutational Signature Estimation for Single Samples5 versions - Latest release: 3 months ago - 8.55 thousand downloads total - 2 stars on GitHub - 1 maintainer
gwasurvivr 1.26.0
gwasurvivr: an R package for genome wide survival analysis5 versions - Latest release: 3 months ago - 14.4 thousand downloads total - 12 stars on GitHub - 1 maintainer
SiPSiC 1.8.0
Calculate Pathway Scores for Each Cell in scRNA-Seq Data9 versions - Latest release: 3 months ago - 4.43 thousand downloads total - 1 maintainer
mistyR 1.16.0
Multiview Intercellular SpaTial modeling framework6 versions - Latest release: 3 months ago - 8.81 thousand downloads total - 44 stars on GitHub - 1 maintainer
faers 1.4.0
R interface for FDA Adverse Event Reporting System4 versions - Latest release: 3 months ago - 3.92 thousand downloads total - 1 maintainer
cbaf 1.30.0
Automated functions for comparing various omic data from cbioportal.org6 versions - Latest release: 3 months ago - 12.9 thousand downloads total - 1 maintainer
PhenoGeneRanker 1.16.0
PhenoGeneRanker: A gene and phenotype prioritization tool5 versions - Latest release: 3 months ago - 5.74 thousand downloads total - 1 maintainer
cfTools 1.8.0
Informatics Tools for Cell-Free DNA Study5 versions - Latest release: 2 months ago - 4.38 thousand downloads total - 6 stars on GitHub - 1 maintainer
rmelting 1.24.0
R Interface to MELTING 55 versions - Latest release: 3 months ago - 10.1 thousand downloads total - 2 stars on GitHub - 1 maintainer
OPWeight 1.30.0
Optimal p-value weighting with independent information5 versions - Latest release: 3 months ago - 20.4 thousand downloads total - 2 stars on GitHub - 1 maintainer
OncoScore 1.36.0
A tool to identify potentially oncogenic genes5 versions - Latest release: 3 months ago - 14.9 thousand downloads total - 5 stars on GitHub - 1 maintainer
sitadela 1.16.0
An R package for the easy provision of simple but complete tab-delimited genomic annotation from ...5 versions - Latest release: 3 months ago - 6.11 thousand downloads total - 0 stars on GitHub - 1 maintainer
metaseqR2 1.20.0
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statisti...5 versions - Latest release: 3 months ago - 9.37 thousand downloads total - 1 maintainer
IsoformSwitchAnalyzeR 2.8.0
Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- a...5 versions - Latest release: 3 months ago - 37.7 thousand downloads total - 1 maintainer
Top 7.2% on bioconductor.org
7 versions - Latest release: 3 months ago - 1 dependent package - 39 thousand downloads total - 1 maintainer
Rcpi 1.44.0
Molecular Informatics Toolkit for Compound-Protein Interaction in Drug Discovery7 versions - Latest release: 3 months ago - 1 dependent package - 39 thousand downloads total - 1 maintainer
Pigengene 1.34.0
Infers biological signatures from gene expression data5 versions - Latest release: 3 months ago - 1 dependent package - 18.5 thousand downloads total - 1 maintainer
frenchFISH 1.20.0
Poisson Models for Quantifying DNA Copy-number from FISH Images of Tissue Sections5 versions - Latest release: 3 months ago - 6.99 thousand downloads total - 1 maintainer
GAprediction 1.34.0
Prediction of gestational age with Illumina HumanMethylation450 data5 versions - Latest release: 3 months ago - 12.8 thousand downloads total - 1 maintainer
Top 5.7% on bioconductor.org
5 versions - Latest release: 3 months ago - 1 dependent package - 65.8 thousand downloads total - 1 maintainer
flowAI 1.38.0
Automatic and interactive quality control for flow cytometry data5 versions - Latest release: 3 months ago - 1 dependent package - 65.8 thousand downloads total - 1 maintainer
rexposome 1.30.0
Exposome exploration and outcome data analysis5 versions - Latest release: 3 months ago - 1 dependent package - 14.9 thousand downloads total - 1 maintainer
easier 1.14.0
Estimate Systems Immune Response from RNA-seq data5 versions - Latest release: 3 months ago - 8.44 thousand downloads total - 1 maintainer
VERSO 1.18.0
Viral Evolution ReconStructiOn (VERSO)5 versions - Latest release: 3 months ago - 6.94 thousand downloads total - 7 stars on GitHub - 1 maintainer
fobitools 1.16.0
Tools for Manipulating the FOBI Ontology5 versions - Latest release: 3 months ago - 6.81 thousand downloads total - 1 stars on GitHub - 1 maintainer
netDx 1.20.0
Network-based patient classifier5 versions - Latest release: 3 months ago - 6.11 thousand downloads total - 1 maintainer
spaSim 1.10.0
Spatial point data simulator for tissue images5 versions - Latest release: 3 months ago - 5.15 thousand downloads total - 2 stars on GitHub - 1 maintainer
LACE 2.12.0
Longitudinal Analysis of Cancer Evolution (LACE)6 versions - Latest release: 3 months ago - 9.63 thousand downloads total - 15 stars on GitHub - 1 maintainer
artMS 1.26.0
Analytical R tools for Mass Spectrometry5 versions - Latest release: 3 months ago - 13.6 thousand downloads total - 1 maintainer
RESOLVE 1.10.0
RESOLVE: An R package for the efficient analysis of mutational signatures from cancer genomes5 versions - Latest release: 3 months ago - 4.91 thousand downloads total - 1 stars on GitHub - 1 maintainer
CTDquerier 2.16.0
Package for CTDbase data query, visualization and downstream analysis5 versions - Latest release: 3 months ago - 9.52 thousand downloads total - 1 maintainer
OMICsPCA 1.26.0
An R package for quantitative integration and analysis of multiple omics assays from heterogeneou...5 versions - Latest release: 3 months ago - 11.3 thousand downloads total - 1 maintainer
ssPATHS 1.22.0
ssPATHS: Single Sample PATHway Score5 versions - Latest release: 3 months ago - 8.11 thousand downloads total - 1 maintainer
GRaNIE 1.12.0
GRaNIE: Reconstruction cell type specific gene regulatory networks including enhancers using sing...5 versions - Latest release: 3 months ago - 7.59 thousand downloads total - 1 maintainer
TRONCO 2.40.0
TRONCO, an R package for TRanslational ONCOlogy5 versions - Latest release: 3 months ago - 21.2 thousand downloads total - 1 maintainer
randRotation 1.20.0
Random Rotation Methods for High Dimensional Data with Batch Structure5 versions - Latest release: 3 months ago - 7.27 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 2.4% on bioconductor.org
5 versions - Latest release: 3 months ago - 2 dependent packages - 266 thousand downloads total - 1 maintainer
DiffBind 3.18.0
Differential Binding Analysis of ChIP-Seq Peak Data5 versions - Latest release: 3 months ago - 2 dependent packages - 266 thousand downloads total - 1 maintainer
Top 6.1% on bioconductor.org
5 versions - Latest release: 3 months ago - 1 dependent package - 59.9 thousand downloads total - 5 stars on GitHub - 1 maintainer
fmcsR 1.50.0
Mismatch Tolerant Maximum Common Substructure Searching5 versions - Latest release: 3 months ago - 1 dependent package - 59.9 thousand downloads total - 5 stars on GitHub - 1 maintainer
miRspongeR 2.12.0
Identification and analysis of miRNA sponge regulation6 versions - Latest release: 3 months ago - 1 dependent package - 9.15 thousand downloads total - 5 stars on GitHub - 1 maintainer
dearseq 1.20.0
Differential Expression Analysis for RNA-seq data through a robust variance component test5 versions - Latest release: 3 months ago - 2 dependent packages - 16 thousand downloads total - 6 stars on GitHub - 1 maintainer
GenomicOZone 1.22.0
Delineate outstanding genomic zones of differential gene activity5 versions - Latest release: 3 months ago - 9.18 thousand downloads total - 1 maintainer
pfamAnalyzeR 1.8.0
Identification of domain isotypes in pfam data5 versions - Latest release: 3 months ago - 1 dependent package - 11.9 thousand downloads total - 1 stars on GitHub - 1 maintainer
powerTCR 1.28.0
Model-Based Comparative Analysis of the TCR Repertoire5 versions - Latest release: 3 months ago - 1 dependent package - 36.3 thousand downloads total - 1 maintainer
decompTumor2Sig 2.24.0
Decomposition of individual tumors into mutational signatures by signature refitting5 versions - Latest release: 3 months ago - 1 dependent package - 14.5 thousand downloads total - 1 maintainer
gCrisprTools 2.14.0
Suite of Functions for Pooled Crispr Screen QC and Analysis5 versions - Latest release: 3 months ago - 15.9 thousand downloads total - 1 maintainer
ZygosityPredictor 1.8.0
Package for prediction of zygosity for variants/genes in NGS data5 versions - Latest release: 3 months ago - 4.17 thousand downloads total - 1 maintainer
microSTASIS 1.8.0
Microbiota STability ASsessment via Iterative cluStering5 versions - Latest release: 3 months ago - 4.6 thousand downloads total - 1 maintainer
SparseSignatures 2.18.0
SparseSignatures5 versions - Latest release: 3 months ago - 12.1 thousand downloads total - 11 stars on GitHub - 1 maintainer
mdp 1.28.0
Molecular Degree of Perturbation calculates scores for transcriptome data samples based on their ...5 versions - Latest release: 3 months ago - 11.8 thousand downloads total - 1 maintainer
RImmPort 1.36.0
RImmPort: Enabling Ready-for-analysis Immunology Research Data5 versions - Latest release: 3 months ago - 13.2 thousand downloads total - 2 maintainers
sincell 1.40.0
R package for the statistical assessment of cell state hierarchies from single-cell RNA-seq data5 versions - Latest release: 3 months ago - 20.1 thousand downloads total - 1 maintainer
geneClassifiers 1.32.0
Application of gene classifiers5 versions - Latest release: 3 months ago - 13 thousand downloads total - 1 maintainer
timescape 1.32.0
Patient Clonal Timescapes5 versions - Latest release: 3 months ago - 14.9 thousand downloads total - 1 maintainer
messina 1.44.0
Single-gene classifiers and outlier-resistant detection of differential expression for two-group ...5 versions - Latest release: 3 months ago - 19.6 thousand downloads total - 1 maintainer
immunotation 1.16.0
Tools for working with diverse immune genes5 versions - Latest release: 3 months ago - 6.92 thousand downloads total - 8 stars on GitHub - 1 maintainer
iNETgrate 1.6.0
Integrates DNA methylation data with gene expression in a single gene network4 versions - Latest release: 3 months ago - 4.25 thousand downloads total - 65 stars on GitHub - 1 maintainer
ASAFE 1.34.0
Ancestry Specific Allele Frequency Estimation5 versions - Latest release: 3 months ago - 15.1 thousand downloads total - 1 maintainer
EWCE 1.16.0
Expression Weighted Celltype Enrichment6 versions - Latest release: 3 months ago - 15.6 thousand downloads total - 53 stars on GitHub - 1 maintainer
SPIAT 1.10.0
Spatial Image Analysis of Tissues9 versions - Latest release: 3 months ago - 8.05 thousand downloads total - 23 stars on GitHub - 1 maintainer
RandomWalkRestartMH 1.26.0 removed
Random walk with restart on multiplex and heterogeneous Networks4 versions - Latest release: 8 months ago - 1 dependent package - 10.7 thousand downloads total - 21 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: almost 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: 8 months 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: about 1 year ago - 9.16 thousand downloads total - 2 maintainers
deco 1.18.0 removed
Decomposing Heterogeneous Cohorts using Omic Data Profiling2 versions - Latest release: over 1 year ago - 4.59 thousand downloads total - 4 stars on GitHub - 1 maintainer
hummingbird 1.14.0
Bayesian Hidden Markov Model for the detection of differentially methylated regions3 versions - Latest release: about 1 year ago - 4.86 thousand downloads total - 1 maintainer
STROMA4 1.26.0 removed
Assign Properties to TNBC Patients3 versions - Latest release: over 1 year ago - 8.43 thousand downloads total - 1 maintainer
proteasy 1.6.0 removed
Protease Mapping3 versions - Latest release: about 1 year ago - 1.34 thousand downloads total - 2 stars on GitHub - 1 maintainer
Related Keywords
Software
92
GeneExpression
31
SystemsBiology
28
Clustering
28
ImmunoOncology
28
RNASeq
25
Transcriptomics
22
DifferentialExpression
21
Sequencing
21
Genetics
20
Visualization
19
DataImport
19
Transcription
18
FunctionalGenomics
18
MultipleComparison
17
Regression
17
GeneSetEnrichment
16
Microarray
16
Proteomics
16
CellBiology
15
Epigenetics
13
Normalization
13
SingleCell
13
Classification
12
Pathways
11
Network
11
GraphAndNetwork
11
Bayesian
11
Cheminformatics
10
SomaticMutation
10
QualityControl
9
DNAMethylation
9
Metabolomics
9
Pharmacogenomics
8
GenePrediction
8
Survival
8
Preprocessing
8
AlternativeSplicing
8
Annotation
7
SNP
7
DifferentialMethylation
7
BatchEffect
7
Infrastructure
7
GeneRegulation
6
GeneTarget
6
GenomicVariation
6
MathematicalBiology
6
Pharmacogenetics
6
DifferentialSplicing
6
Spatial
6
DataRepresentation
6
NetworkInference
6
FeatureExtraction
5
KEGG
5
GeneticVariability
5
FunctionalPrediction
5
r
5
DimensionReduction
5
StatisticalMethod
5
TimeCourse
5
mRNAMicroarray
5
ChIPSeq
5
CellBasedAssays
5
MicrotitrePlateAssay
4
bioinformatics
4
PrincipalComponent
4
OneChannel
4
Coverage
4
MicroRNAArray
4
ExonArray
3
ATACSeq
3
TranscriptomeVariant
3
HiddenMarkovModel
3
MethylationArray
3
ProprietaryPlatforms
3
DNASeq
3
GO
3
bioconductor
3
BiologicalQuestion
3
ExperimentalDesign
3
MethylSeq
3
ReportWriting
3
transcriptomics
2
MassSpectrometry
2
immunoinformatics
2
r-package
2
GUI
2
NetworkEnrichment
2
TwoChannel
2
HistoneModification
2
immunology
2
DecisionTree
2
GenomeWideAssociation
2
cerna
2
mirna
2
CopyNumberVariation
2
differential-gene-expression
2
WorkflowStep
2
b-cell-receptor
2
clustering
2