Ecosyste.ms: Packages
An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.
bioconductor.org "GO" keyword
hipathia 3.2.0
HiPathia: High-throughput Pathway Analysis3 versions - Latest release: 6 months ago - 10.6 thousand downloads total - 1 maintainer
MetaNeighbor 1.22.0
Single cell replicability analysis3 versions - Latest release: 6 months ago - 10 thousand downloads total - 1 maintainer
GOfuncR 1.22.2
Gene ontology enrichment using FUNC4 versions - Latest release: 3 months ago - 20.3 thousand downloads total - 1 maintainer
Top 9.5% on bioconductor.org
3 versions - Latest release: 6 months ago - 29.4 thousand downloads total - 1 maintainer
GOSim 1.40.0
Computation of functional similarities between GO terms and gene products; GO enrichment analysis3 versions - Latest release: 6 months ago - 29.4 thousand downloads total - 1 maintainer
CTDquerier 2.10.0
Package for CTDbase data query, visualization and downstream analysis3 versions - Latest release: 6 months ago - 5.56 thousand downloads total - 1 maintainer
NetActivity 1.4.0
Compute gene set scores from a deep learning framework3 versions - Latest release: 6 months ago - 1.6 thousand downloads total - 1 maintainer
Top 6.5% on bioconductor.org
3 versions - Latest release: 6 months ago - 1 dependent package - 39.9 thousand downloads total - 1 maintainer
interactiveDisplay 1.40.0
Package for enabling powerful shiny web displays of Bioconductor objects3 versions - Latest release: 6 months ago - 1 dependent package - 39.9 thousand downloads total - 1 maintainer
BioMM 1.18.0 removed
BioMM: Biological-informed Multi-stage Machine learning framework for phenotype prediction using ...2 versions - Latest release: 6 months ago - 4.99 thousand downloads total - 1 maintainer
FoldGO 1.20.0
Package for Fold-specific GO Terms Recognition3 versions - Latest release: 6 months ago - 5.5 thousand downloads total - 1 maintainer
Top 9.8% on bioconductor.org
3 versions - Latest release: 6 months ago - 1 dependent package - 26.8 thousand downloads total - 1 maintainer
FGNet 3.36.0
Functional Gene Networks derived from biological enrichment analyses3 versions - Latest release: 6 months ago - 1 dependent package - 26.8 thousand downloads total - 1 maintainer
gep2pep 1.22.0
Creation and Analysis of Pathway Expression Profiles (PEPs)3 versions - Latest release: 6 months ago - 7.44 thousand downloads total - 1 maintainer
Top 7.2% on bioconductor.org
3 versions - Latest release: 6 months ago - 1 dependent package - 33.5 thousand downloads total - 1 maintainer
Rcpi 1.38.0
Molecular Informatics Toolkit for Compound-Protein Interaction in Drug Discovery3 versions - Latest release: 6 months ago - 1 dependent package - 33.5 thousand downloads total - 1 maintainer
Top 9.0% on bioconductor.org
3 versions - Latest release: 6 months ago - 2 dependent packages - 29.4 thousand downloads total - 1 maintainer
MLP 1.50.0
Mean Log P Analysis3 versions - Latest release: 6 months ago - 2 dependent packages - 29.4 thousand downloads total - 1 maintainer
canceR 1.36.8
A Graphical User Interface for accessing and modeling the Cancer Genomics Data of MSKCC6 versions - Latest release: about 1 month ago - 19 thousand downloads total - 8 stars on GitHub - 1 maintainer
DAPAR 1.34.6
Tools for the Differential Analysis of Proteins Abundance with R6 versions - Latest release: 3 months ago - 1 dependent package - 20.5 thousand downloads total - 1 maintainer
KnowSeq 1.16.0
KnowSeq R/Bioc package: The Smart Transcriptomic Pipeline3 versions - Latest release: 6 months ago - 6.15 thousand downloads total - 1 maintainer
Top 6.5% on bioconductor.org
3 versions - Latest release: 6 months ago - 1 dependent package - 41.8 thousand downloads total - 1 maintainer
goProfiles 1.64.0
goProfiles: an R package for the statistical analysis of functional profiles3 versions - Latest release: 6 months ago - 1 dependent package - 41.8 thousand downloads total - 1 maintainer
goSorensen 1.4.0
Statistical inference based on the Sorensen-Dice dissimilarity and the Gene Ontology (GO)3 versions - Latest release: 6 months ago - 1.75 thousand downloads total - 1 maintainer
GRridge 1.26.0 removed
Better prediction by use of co-data: Adaptive group-regularized ridge regression2 versions - Latest release: 6 months ago - 7.94 thousand downloads total - 1 maintainer
PloGO2 1.14.0
Plot Gene Ontology and KEGG pathway Annotation and Abundance3 versions - Latest release: 6 months ago - 4.63 thousand downloads total - 2 maintainers
seqArchRplus 1.2.0
Downstream analyses of promoter sequence architectures and HTML report generation3 versions - Latest release: 6 months ago - 1.51 thousand downloads total - 0 stars on GitHub - 1 maintainer
SemDist 1.36.0
Information Accretion-based Function Predictor Evaluation3 versions - Latest release: 6 months ago - 13.2 thousand downloads total - 1 stars on GitHub - 1 maintainer
BiocSet 1.16.1
Representing Different Biological Sets3 versions - Latest release: 3 months ago - 4 dependent packages - 15.2 thousand downloads total - 1 maintainer
ViSEAGO 1.16.0
ViSEAGO: a Bioconductor package for clustering biological functions using Gene Ontology and seman...3 versions - Latest release: 6 months ago - 12 thousand downloads total - 1 maintainer
goSTAG 1.26.0
A tool to use GO Subtrees to Tag and Annotate Genes within a set3 versions - Latest release: 6 months ago - 9.53 thousand downloads total - 1 maintainer
Top 9.8% on bioconductor.org
4 versions - Latest release: 4 months ago - 1 dependent package - 28 thousand downloads total - 1 maintainer
EGSEA 1.30.1
Ensemble of Gene Set Enrichment Analyses4 versions - Latest release: 4 months ago - 1 dependent package - 28 thousand downloads total - 1 maintainer
ClusterJudge 1.24.0
Judging Quality of Clustering Methods using Mutual Information3 versions - Latest release: 6 months ago - 7.83 thousand downloads total - 1 maintainer
MSA2dist 1.6.0
MSA2dist calculates pairwise distances between all sequences of a DNAStringSet or a AAStringSet u...3 versions - Latest release: 6 months ago - 1 dependent package - 3.91 thousand downloads total - 1 maintainer
RCAS 1.28.3
RNA Centric Annotation System4 versions - Latest release: 3 months ago - 1 dependent package - 13.1 thousand downloads total - 1 maintainer
signatureSearch 1.16.0
Environment for Gene Expression Searching Combined with Functional Enrichment Analysis3 versions - Latest release: 6 months ago - 10.6 thousand downloads total - 17 stars on GitHub - 1 maintainer
GOsummaries 2.37.0 removed
Word cloud summaries of GO enrichment analysis2 versions - Latest release: 6 months ago - 19.7 thousand downloads total - 11 stars on GitHub - 1 maintainer
Top 6.3% on bioconductor.org
3 versions - Latest release: 6 months ago - 43.9 thousand downloads total - 1 maintainer
goTools 1.76.0
Functions for Gene Ontology database3 versions - Latest release: 6 months ago - 43.9 thousand downloads total - 1 maintainer
FELLA 1.22.0
Interpretation and enrichment for metabolomics data3 versions - Latest release: 6 months ago - 13.6 thousand downloads total - 1 maintainer
GOpro 1.28.0
Find the most characteristic gene ontology terms for groups of human genes3 versions - Latest release: 6 months ago - 15 thousand downloads total - 2 stars on GitHub - 1 maintainer
tRanslatome 1.40.0
Comparison between multiple levels of gene expression3 versions - Latest release: 6 months ago - 20 thousand downloads total - 2 maintainers
Top 10.0% on bioconductor.org
3 versions - Latest release: 6 months ago - 1 dependent package - 28.4 thousand downloads total - 5 stars on GitHub - 1 maintainer
mgsa 1.50.0
Model-based gene set analysis3 versions - Latest release: 6 months ago - 1 dependent package - 28.4 thousand downloads total - 5 stars on GitHub - 1 maintainer
GeDi 1.0.0
Defining and visualizing the distances between different genesets1 version - Latest release: 21 days ago - 148 downloads total - 1 stars on GitHub - 1 maintainer
OmaDB 2.20.0
R wrapper for the OMA REST API3 versions - Latest release: 5 days ago - 2 dependent packages - 11.4 thousand downloads total - 1 stars on GitHub - 2 maintainers
Top 1.9% on bioconductor.org
3 versions - Latest release: 19 days ago - 15 dependent packages - 1.18 million downloads total - 1 maintainer
enrichplot 1.24.0
Visualization of Functional Enrichment Result3 versions - Latest release: 19 days ago - 15 dependent packages - 1.18 million downloads total - 1 maintainer
Top 1.2% on bioconductor.org
4 versions - Latest release: 19 days ago - 59 dependent packages - 1.4 million downloads total - 1 maintainer
clusterProfiler 4.12.0
A universal enrichment tool for interpreting omics data4 versions - Latest release: 19 days ago - 59 dependent packages - 1.4 million downloads total - 1 maintainer
Top 1.4% on bioconductor.org
3 versions - Latest release: 19 days ago - 49 dependent packages - 976 thousand downloads total - 1 maintainer
GSEABase 1.66.0
Gene set enrichment data structures and methods3 versions - Latest release: 19 days ago - 49 dependent packages - 976 thousand downloads total - 1 maintainer
Top 0.9% on bioconductor.org
3 versions - Latest release: 19 days ago - 48 dependent packages - 3.6 million downloads total - 1 maintainer
annotate 1.82.0
Annotation for microarrays3 versions - Latest release: 19 days ago - 48 dependent packages - 3.6 million downloads total - 1 maintainer
UniProt.ws 2.44.0
R Interface to UniProt Web Services3 versions - Latest release: 20 days ago - 6 dependent packages - 54.1 thousand downloads total - 4 stars on GitHub - 1 maintainer
simplifyEnrichment 1.12.0
Simplify Functional Enrichment Results2 versions - Latest release: 6 months ago - 4 dependent packages - 21.9 thousand downloads total - 94 stars on GitHub - 1 maintainer
Top 2.1% on bioconductor.org
3 versions - Latest release: 4 months ago - 14 dependent packages - 1.15 million downloads total - 1 maintainer
GOSemSim 2.28.1
GO-terms Semantic Similarity Measures3 versions - Latest release: 4 months ago - 14 dependent packages - 1.15 million downloads total - 1 maintainer
GeneTonic 2.8.0
Enjoy Analyzing And Integrating The Results From Differential Expression Analysis And Functional ...3 versions - Latest release: 20 days ago - 1 dependent package - 10 thousand downloads total - 75 stars on GitHub - 1 maintainer
enrichViewNet 1.2.0
From functional enrichment results to biological networks2 versions - Latest release: 10 days ago - 930 downloads total - 5 stars on GitHub - 1 maintainer
rrvgo 1.16.0
Reduce + Visualize GO5 versions - Latest release: 11 days ago - 17.7 thousand downloads total - 20 stars on GitHub - 1 maintainer
InterMineR 1.26.0
R Interface with InterMine-Powered Databases4 versions - Latest release: 12 days ago - 10.4 thousand downloads total - 17 stars on GitHub - 1 maintainer
fgga 1.12.0
Hierarchical ensemble method based on factor graph4 versions - Latest release: 13 days ago - 3.07 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 2.7% on bioconductor.org
3 versions - Latest release: 13 days ago - 6 dependent packages - 220 thousand downloads total - 1 maintainer
globaltest 5.58.0
Testing Groups of Covariates/Features for Association with a Response Variable, with Applications...3 versions - Latest release: 13 days ago - 6 dependent packages - 220 thousand downloads total - 1 maintainer
Top 2.7% on bioconductor.org
3 versions - Latest release: 13 days ago - 5 dependent packages - 218 thousand downloads total - 2 maintainers
goseq 1.56.0
Gene Ontology analyser for RNA-seq and other length biased data3 versions - Latest release: 13 days ago - 5 dependent packages - 218 thousand downloads total - 2 maintainers
Top 2.3% on bioconductor.org
4 versions - Latest release: 13 days ago - 5 dependent packages - 201 thousand downloads total - 3 maintainers
ReportingTools 2.44.0
Tools for making reports in various formats4 versions - Latest release: 13 days ago - 5 dependent packages - 201 thousand downloads total - 3 maintainers
Top 5.7% on bioconductor.org
3 versions - Latest release: 20 days ago - 3 dependent packages - 47.1 thousand downloads total - 76 stars on GitHub - 1 maintainer
rGREAT 2.6.0
GREAT Analysis - Functional Enrichment on Genomic Regions3 versions - Latest release: 20 days ago - 3 dependent packages - 47.1 thousand downloads total - 76 stars on GitHub - 1 maintainer
BgeeDB 2.30.0
Annotation and gene expression data retrieval from Bgee database. TopAnat, an anatomical entities...3 versions - Latest release: 20 days ago - 2 dependent packages - 17.4 thousand downloads total - 13 stars on GitHub - 4 maintainers
Top 3.0% on bioconductor.org
3 versions - Latest release: 20 days ago - 4 dependent packages - 171 thousand downloads total - 5 stars on GitHub - 1 maintainer
gage 2.54.0
Generally Applicable Gene-set Enrichment for Pathway Analysis3 versions - Latest release: 20 days ago - 4 dependent packages - 171 thousand downloads total - 5 stars on GitHub - 1 maintainer
mosdef 1.0.0
MOSt frequently used and useful Differential Expression Functions1 version - Latest release: 21 days ago - 0 stars on GitHub - 1 maintainer
SurfR 0.99.54
Surface Protein Prediction and Identification1 version - Latest release: 21 days ago - 129 downloads total - 0 stars on GitHub - 1 maintainer
cogena 1.36.0
co-expressed gene-set enrichment analysis2 versions - Latest release: 6 months ago - 17.5 thousand downloads total - 12 stars on GitHub - 1 maintainer
iSEEpathways 1.0.0
iSEE extension for panels related to pathway analysis1 version - Latest release: 7 months ago - 677 downloads total - 1 stars on GitHub - 1 maintainer
InterCellar 2.8.0
InterCellar: an R-Shiny app for interactive analysis and exploration of cell-cell communication i...2 versions - Latest release: 6 months ago - 3.96 thousand downloads total - 8 stars on GitHub - 1 maintainer
geneXtendeR 1.28.0
Optimized Functional Annotation Of ChIP-seq Data2 versions - Latest release: 6 months ago - 13.1 thousand downloads total - 9 stars on GitHub - 1 maintainer
Top 2.3% on bioconductor.org
2 versions - Latest release: 7 months ago - 23 dependent packages - 501 thousand downloads total - 1 maintainer
GOstats 2.68.0
Tools for manipulating GO and microarrays2 versions - Latest release: 7 months ago - 23 dependent packages - 501 thousand downloads total - 1 maintainer
GOexpress 1.36.0
Visualise microarray and RNAseq data using gene ontology annotations2 versions - Latest release: 6 months ago - 1 dependent package - 23.7 thousand downloads total - 9 stars on GitHub - 1 maintainer
famat 1.12.0
Functional analysis of metabolic and transcriptomic data2 versions - Latest release: 6 months ago - 3.29 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 6.4% on bioconductor.org
2 versions - Latest release: 7 months ago - 2 dependent packages - 375 thousand downloads total - 1 maintainer
annaffy 1.74.0
Annotation tools for Affymetrix biological metadata2 versions - Latest release: 7 months ago - 2 dependent packages - 375 thousand downloads total - 1 maintainer
Top 4.7% on bioconductor.org
2 versions - Latest release: 7 months ago - 3 dependent packages - 793 thousand downloads total - 1 maintainer
interactiveDisplayBase 1.40.0
Base package for enabling powerful shiny web displays of Bioconductor objects2 versions - Latest release: 7 months ago - 3 dependent packages - 793 thousand downloads total - 1 maintainer
Top 2.6% on bioconductor.org
2 versions - Latest release: 6 months ago - 13 dependent packages - 513 thousand downloads total - 1 maintainer
Category 2.68.0
Category Analysis2 versions - Latest release: 6 months ago - 13 dependent packages - 513 thousand downloads total - 1 maintainer
simona 1.0.10
Semantic Similarity in Bio-Ontologies3 versions - Latest release: 3 months ago - 964 downloads total - 7 stars on GitHub - 1 maintainer
Top 5.2% on bioconductor.org
4 versions - Latest release: 3 months ago - 3 dependent packages - 56.4 thousand downloads total - 11 stars on GitHub - 1 maintainer
rols 2.30.2
An R interface to the Ontology Lookup Service4 versions - Latest release: 3 months ago - 3 dependent packages - 56.4 thousand downloads total - 11 stars on GitHub - 1 maintainer
fenr 1.0.5
Fast functional enrichment for interactive applications4 versions - Latest release: 3 months ago - 733 downloads total - 0 stars on GitHub - 1 maintainer
ontoProc 1.24.0
processing of ontologies of anatomy, cell lines, and so on2 versions - Latest release: 7 months ago - 3 dependent packages - 13.2 thousand downloads total - 2 stars on GitHub - 1 maintainer
GWENA 1.12.0
Pipeline for augmented co-expression analysis2 versions - Latest release: 6 months ago - 7.06 thousand downloads total - 18 stars on GitHub - 1 maintainer
NoRCE 1.14.0
NoRCE: Noncoding RNA Sets Cis Annotation and Enrichment2 versions - Latest release: 6 months ago - 4.23 thousand downloads total - 1 stars on GitHub - 1 maintainer
categoryCompare 1.46.0
Meta-analysis of high-throughput experiments using feature annotations2 versions - Latest release: 6 months ago - 23.2 thousand downloads total - 5 stars on GitHub - 1 maintainer
Top 7.7% on bioconductor.org
2 versions - Latest release: 6 months ago - 35.7 thousand downloads total - 2 maintainers
GDCRNATools 1.22.0
GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA, mRNA, and miRNA data i...2 versions - Latest release: 6 months ago - 35.7 thousand downloads total - 2 maintainers
GAPGOM 1.16.0 removed
GAPGOM (novel Gene Annotation Prediction and other GO Metrics)1 version - Latest release: 7 months ago - 3.72 thousand downloads total - 2 stars on GitHub - 1 maintainer
Related Keywords
Software
77
GeneSetEnrichment
39
GeneExpression
37
Pathways
37
Visualization
25
Annotation
24
Microarray
20
KEGG
20
Clustering
19
DifferentialExpression
18
MultipleComparison
14
Sequencing
14
RNASeq
13
Network
12
Genetics
10
GraphAndNetwork
10
ImmunoOncology
10
NetworkEnrichment
8
DataImport
8
Classification
8
DataRepresentation
7
Reactome
7
Transcription
7
Transcriptomics
7
SystemsBiology
6
bioconductor
6
GUI
6
r
6
Proteomics
5
FunctionalPrediction
5
GenomeAnnotation
5
ShinyApps
5
QualityControl
5
FunctionalGenomics
5
ReportWriting
5
Coverage
4
OneChannel
4
GeneTarget
4
Infrastructure
4
bioinformatics
4
GenePrediction
3
bioconductor-package
3
GeneRegulation
3
BiomedicalInformatics
3
Survival
2
MotifAnnotation
2
mRNAMicroarray
2
Metabolomics
2
genomics
2
TwoChannel
2
StatisticalMethod
2
enrichment-analysis
2
NetworkInference
2
Bioinformatics
2
ComparativeGenomics
2
BiologicalQuestion
2
transcriptomics
2
shiny
2
gene-expression
2
BatchEffect
2
Alignment
2
Preprocessing
2
Normalization
2
MassSpectrometry
2
GeneSignaling
2
SingleCell
2
gene
2
AnnotationData
2
Regression
2
FeatureExtraction
2
package
1
isee
1
iseeu
1
ChIPSeq
1
ChipOnChip
1
DifferentialPeakCalling
1
GenomeAssembly
1
PrincipalComponent
1
rstats
1
single-cell
1
scrna-seq
1
rna-seq
1
WholeGenome
1
SupportVectorMachine
1
core-package
1
geneontology
1
geneset-enrichment
1
compound
1
gene-ontology
1
genes
1
pathways
1
bioconductor-stats
1
ontology
1
TimeCourse
1
co-expression
1
functional-annotation
1
epigenetics
1
computational-biology
1
chip-seq
1
network-analysis
1