Biocview "GO"

A Graphical User Interface for accessing and modeling the Cancer Genomics Data of MSKCC

AmiGO visualize R interface

Annotation and gene expression data retrieval from Bgee database

Annotation and gene expression data retrieval from Bgee database. TopAnat, an anatomical entities Enrichment Analysis tool for UBERON ontology

Annotation for microarrays

Annotation tools for Affymetrix biological metadata

An R interface to the Ontology Lookup Service

An R Package for Unbiased Splicing Pathway Analysis

An R Package for Unbiased Splicing Pathway Analysis in RNAseq data

An R pipeline for .bed file annotation, comparing GO term enrichment between gene sets and data visualisation

A tool to use GO Subtrees to Tag and Annotate Genes within a set

Augmented functionality for analysis of epigenomic variance

A universal enrichment tool for interpreting omics data

Base package for enabling powerful shiny web displays of Bioconductor objects

Better prediction by use of co-data: Adaptive group-regularized ridge regression

BioMM: Biological-informed Multi-stage Machine learning framework for phenotype prediction using omics data

Build Annotation From Online Database

Category Analysis

Client for GREAT Analysis

co-expressed gene-set enrichment analysis

Comparison between multiple levels of gene expression

Computation of functional similarities between GO terms and gene products; GO enrichment analysis

Compute cell-type specific enrichments with high resolution

Computing multi-omics driven similarity scores between patient tumor samples and cell lines for personalized medicine

Convenience package for solving some liftover challenges

Creation and Analysis of Pathway Expression Profiles (PEPs)

dgeAnalysis

distSTRING calculates pairwise distances between all sequences of a DNAStringSet or a AAStringSet using a custom score matrix and conducts codon based analysis

Efficient compression and analysis of Hi-C Data

Enjoy Analyzing And Integrating The Results From Differential Expression Analysis And Functional Enrichment Analysis

Enrichment Analysis for Gene Ontology

Ensemble of Gene Set Enrichment Analyses

Environment for Gene Expression Searching Combined with Functional Enrichment Analysis

Exploration and Significant Biology on a Gene Set.

Find the most characteristic gene ontology terms for groups of human genes

From functional enrichment results to biological networks

Functional analysis of metabolic and transcriptomic data

Functional Enrichment analysis

Functional Gene Networks derived from biological enrichment analyses

Functions for Gene Ontology database

GAPGOM (novel Gene Annotation Prediction and other GO Metrics)

GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA, mRNA, and miRNA data in GDC

Gene Ontology analyser for RNA-seq and other length biased data

Gene ontology enrichment using FUNC

Generally Applicable Gene-set Enrichment for Pathway Analysis

Generating Various Molecular Representations for Chemicals, Proteins, DNAs, RNAs and Their Interactions

Generating Various Molecular Representations for Chemicals, Proteins, DNAs/RNAs and Their Interactions

Gene Set Enrichment Analysis Extended to Contingency Cubes

Gene set enrichment data structures and methods

Gene-set Enrichment with Regularized Regression

GO-function: deriving biologcially relevant functions from statistically significant functions

goProfiles: an R package for the statistical analysis of functional profiles

GO-terms Semantic Similarity Measures

GREAT Analysis - Functional Enrichment on Genomic Regions

Hierarchical ensemble method based on factor graph

HiPathia: High-throughput Pathway Analysis

HTSanalyzeR2: An R package for functional annotation, network analysis and time series analysis of high-throughput data

Identifying differential DNA loops from chromatin topology data

Identify Moonlighting ncRNAs

Inference and visualisation of Single-Cell RNA-seq data as a hierarchical tree structure

Information Accretion-based Function Predictor Evaluation

InterCellar: an R-Shiny app for interactive analysis and exploration of cell-cell communication in single-cell transcriptomics

Interpretation and enrichment for metabolomics data

Judging Quality of Clustering Methods using Mutual Information

KnowSeq R/Bioc package: The Smart Transcriptomic Pipeline

Learn and Apply Cell Type Signatures

Meta-analysis of high-throughput experiments using feature annotations

Meta-Analysis of High-Throughput Experiments Using Feature Annotations

miRDriver: A Tool to Infer Copy Number Derived miRNA-Gene Networks in Cancer

Model-based gene set analysis

Molecular Informatics Toolkit for Compound-Protein Interaction in Drug Discovery

MSA2dist calculates pairwise distances between all sequences of a DNAStringSet or a AAStringSet using a custom score matrix and conducts codon based analysis

Multi Dimensional Gene Set Analysis.

Multivariate and directional gene set testing

Murine Palate miRNA Expression Analysis

NoRCE: Noncoding RNA Sets Cis Annotation and Enrichment

Optimized Functional Annotation Of ChIP-seq Data

Package for CTDbase data query, visualization and downstream analysis

Package for enabling powerful shiny web displays of Bioconductor objects

Package for Fold-specific GO Terms Recognition

pcaGoPromoter is used to analyze DNA micro array data

Pipeline for augmented co-expression analysis

PKG_TITLE

Plot Gene Ontology and KEGG pathway Annotation and Abundance

Polygenic Pathway Enrichment Accounting for Genetic Linkage

processing of ontologies of anatomy, cell lines, and so on

Provides a GUI for DAPAR

Reduce + Visualize GO

Representing Different Biological Sets

R Interface to UniProt Web Services

R Interface with InterMine-Powered Databases

RNA Centric Annotation System

RNASeqR: an R package for automated two-group RNA-Seq analysis workflow

R wrapper for the OMA REST API

Select gold standard including positive and negative genes pairs based on the Gene Ontology

SEPA

Signature Overrepresentation Analysis

Simplified RNA-Seq Analysis Pipeline

Simplify Functional Enrichment Results

Single cell replicability analysis

statistical analysis and visualization of functional profiles for genes and gene clusters

Statistical analysis of high-throughput RNAi screens

Statistical inference based on the Sorensen-Dice dissimilarity and the Gene Ontology (GO)

Testing Groups of Covariates/Features for Association with a Response Variable, with Applications to Gene Set Testing

Tools for making reports in various formats

Tools for manipulating GO and microarrays

Tools for the Differential Analysis of Proteins Abundance with R

ViSEAGO: a Bioconductor package for clustering biological functions using Gene Ontology and semantic similarity

ViSEAGO: Easier data mining of biological functions organized into clusters using Gene Ontology and semantic similarity

Visualise microarray and RNAseq data using gene ontology annotations

Visualization of Functional Enrichment Result

Visualize biclusters identified in gene expression data

Word cloud summaries of GO enrichment analysis

Yet Another Gene Ontology Package

Yet Another Single-Cell Analysis Toolkit (Yeskit)

You Only Lookup One (small part of an otherwise large matrix)

Biocview "GO"

R Package Documentation

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