Biocview "Annotation"

Accesses MyVariant.info variant query and annotation services
Accesses MyVariant.info variant query and annotation services
Accesses MyVariant.info variant query and annotation services
Access MyGene.Info_ services
Access MyGene.Info_ services
Access MyGene.Info_ services
Access MyGene.Info_ services
A client for retrieving Bioconductor objects from AnnotationHub
a database about transcript factors and their RPscored-targeting genes from Encode CHiP-seq data
Affymetrix Quality Assessment and Analysis Tool
Affymetrix Quality Assessment and Analysis Tool
alternative CDF environments (aka probeset mappings)
alternative CDF environments (aka probeset mappings)
Annotate microarrays and perform cross-species gene expression analyses using flat file databases.
Annotate microarrays and perform cross-species gene expression analyses using flat file databases.
Annotation, analysis and visualization of circRNA data
Annotation Database Interface
Annotation Database Interface
Annotation Database Interface
Annotation for microarrays
Annotation for microarrays
Annotation for microarrays
Annotation of Genetic Variants
Annotation of Genetic Variants
Annotation of Genetic Variants
Annotation of Genetic Variants
Annotation of Genomic Regions to Genomic Annotations
Annotation of Genomic Regions to Genomic Annotations
Annotation of Genomic Regions to Genomic Annotations
Annotation tools for Affymetrix biological metadata
Annotation tools for Affymetrix biological metadata
An R interface to the Ontology Lookup Service
An R interface to the Ontology Lookup Service
An R interface to the Ontology Lookup Service
an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
Assign rfPred functional prediction scores to a missense variants list
Assign rfPred functional prediction scores to a missense variants list
Base Classes and Functions for Phylogenetic Tree Input and Output
Base Classes and Functions for Phylogenetic Tree Input and Output
Base Classes and Functions for Phylogenetic Tree Input and Output
Batch annotation of the peaks identified from either ChIP-seq, ChIP-chip experiments or any experiments resulted in large number of chromosome ranges
Batch annotation of the peaks identified from either ChIP-seq, ChIP-chip experiments or any experiments resulted in large number of chromosome ranges
Broadcast data between R and Gaggle
Broadcast data between R and Gaggle
Category Analysis
Category Analysis
Category Analysis
ChIPseeker for ChIP peak Annotation, Comparison, and Visualization
ChIPseeker for ChIP peak Annotation, Comparison, and Visualization
ChIPseeker for ChIP peak Annotation, Comparison, and Visualization
ChIP-Seq Analysis with Windows
ChIP-Seq Analysis with Windows
ChIP-Seq Analysis with Windows
Client-side REST access KEGG
Client-side REST access to KEGG
Client-side REST access to KEGG
Client-side REST access to KEGG
Code for Building Annotation Database Packages
Code for Building Annotation Database Packages
Code for Building Annotation Database Packages
Code for Building Annotation Database Packages
Code for using BridgeDb identifier mapping framework from within R
Code for using BridgeDb identifier mapping framework from within R
Code for using BridgeDb identifier mapping framework from within R
Converting experimental metadata from ISA-tab into Bioconductor data structures
Converting experimental metadata from ISA-tab into Bioconductor data structures
Converting experimental metadata from ISA-tab into Bioconductor data structures
Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them
Create, manipulate, visualize splicing graphs, and assign RNA-seq reads to them
Cross Platform Meta-Analysis of Microarray Data
Cross Platform Meta-Analysis of Microarray Data
Cross Platform Meta-Analysis of Microarray Data
DBI to construct MeSH-related package from sqlite file
DBI to construct MeSH-related package from sqlite file
DeepBlueR
DeepBlueR
DeepBlueR
DeepBlueR
Delayed?Array with remote, e.g., HDF5Server or BigQuery, back end
Delayed?Array with remote, e.g., HDF5Server or BigQuery, back end
Delayed operations on array-like objects
Delayed operations on array-like objects
Delayed operations on array-like objects
Differential Coverage package
Disease Ontology Semantic and Enrichment analysis
Disease Ontology Semantic and Enrichment analysis
Disease Ontology Semantic and Enrichment analysis
Disease Ontology Semantic and Enrichment analysis
Distributed Annotation System in R
Distributed Annotation System in R
DMRforPairs: identifying Differentially Methylated Regions between unique samples using array based methylation profiles
DMRforPairs: identifying Differentially Methylated Regions between unique samples using array based methylation profiles
dplyr-based Access to Bioconductor Annotation Resources
dplyr-based Access to Bioconductor Annotation Resources
dplyr-based Access to Bioconductor Annotation Resources
Exploration of marker-gene sequence taxonomic annotations
Exploration of marker-gene sequence taxonomic annotations
Exploration of marker-gene sequence taxonomic annotations
Export plotting files to the xmapBridge for visualisation in X:Map
Export plotting files to the xmapBridge for visualisation in X:Map
Facilities for Filtering Bioconductor Annotation Resources
Facilities for Filtering Bioconductor Annotation Resources
Facilities for Filtering Bioconductor Annotation Resources
Facilities for Filtering Bioconductor Annotation Resources
Facilities for Filtering Bioconductor Annotation Resources
Fast Reading and Processing of Common Gene Annotation and Next Generation Sequencing Format Files
Fast Reading and Processing of Common Gene Annotation and Next Generation Sequencing Format Files
Filtering of coding and non-coding genetic variants
Filtering of coding and non-coding genetic variants
Filtering of coding and non-coding genetic variants
Finding the DNA and protein sequences in a list of genomic or proteomic loci
Find the most characteristic gene ontology terms for groups of human genes
Find the most characteristic gene ontology terms for groups of human genes
Find the most characteristic gene ontology terms for groups of human genes
Find the most characteristic gene ontology terms for groups of human genes
flexible pipelines for secretome prediction
Functional Gene Networks derived from biological enrichment analyses
Functional Gene Networks derived from biological enrichment analyses
Functions for annotating GRanges objects
Functions for annotating GRanges objects
Functions for annotating GRanges objects
Functions for Multinomial Occupancy Distribution
Functions for Multinomial Occupancy Distribution
geneChip Analysis Package
geneChip Analysis Package
Geneset enrichment based on InterPro domain signatures
Geneset enrichment based on InterPro domain signatures
Gene transfer format files for common ChIP-seq model organisms
Genome annotation and visualisation package pertaining to Affymetrix arrays and NGS analysis.
Genome annotation and visualisation package pertaining to Affymetrix arrays and NGS analysis.
Genome sequencing project metadata
Genome sequencing project metadata
Genome sequencing project metadata
Genometric Correlation package
Global visualization tool of genomic data
Global visualization tool of genomic data
goProfiles: an R package for the statistical analysis of functional profiles
goProfiles: an R package for the statistical analysis of functional profiles
GO-terms Semantic Similarity Measures
GO-terms Semantic Similarity Measures
GO-terms Semantic Similarity Measures
GWAS Analysis of Regulatory or Functional Information Enrichment with LD correction
GWAS Analysis of Regulatory or Functional Information Enrichment with LD correction
HDF5 back end for DelayedArray objects
HDF5 back end for DelayedArray objects
High-quality circular visualization of omics data
High-quality circular visualization of omics data
Human ChIP-seq peaks data from ENCODE and ROADMAP Epigenomics
Identify Metabolic Subpathways Mediated by MicroRNAs
ID Mapping Analysis
ID Mapping Analysis
ID Mapping Data Retrieval
ID Mapping Data Retrieval
ID Mapping Data Retrieval
Information Accretion-based Function Predictor Evaluation
Information Accretion-based Function Predictor Evaluation
Infrastructure for Biostrings-based genome data packages
Infrastructure for Biostrings-based genome data packages and support for efficient SNP representation
Infrastructure to work with genomewide position-specific scores
Infrastructure to work with genomewide position-specific scores
Infrastructure to work with genomewide position-specific scores
Integrating Functional Non-coding Datasets with Genetic Association Studies to Identify Candidate Regulatory SNPs
Integrating Functional Non-coding Datasets with Genetic Association Studies to Identify Candidate Regulatory SNPs
Integrating Functional Non-coding Datasets with Genetic Association Studies to Identify Candidate Regulatory SNPs
Integrative analysis of structural variations
Integrative analysis of structural variations
Integrative analysis of structural variations
Interface to BioMart databases (e.g. Ensembl, COSMIC, Wormbase and Gramene)
Interface to BioMart databases (e.g. Ensembl, COSMIC, Wormbase and Gramene)
Interface to BioMart databases (e.g. Ensembl, COSMIC, Wormbase and Gramene)
Introduce *Ranges to bedtools users
Introduce *Ranges to bedtools users
Introduce *Ranges to bedtools users
Iterative Binary Biclustering of Genesets
Iterative Binary Biclustering of Genesets
MeSH Enrichment and Semantic analyses
MeSH Enrichment and Semantic analyses
MeSH Enrichment and Semantic analyses
Meta-analysis of high-throughput experiments using feature annotations
Meta-analysis of high-throughput experiments using feature annotations
Meta-analysis of high-throughput experiments using feature annotations
Meta-analysis of high-throughput experiments using feature annotations
Meta-data and tools for E. coli
Meta-data and tools for E. coli
miRNApath: Pathway Enrichment for miRNA Expression Data
miRNApath: Pathway Enrichment for miRNA Expression Data
mirtarbase: a database of validated miRNA target gene interactions
Motifs in Tandem with One Another
Multi Dimensional Gene Set Analysis.
Multi Dimensional Gene Set Analysis.
Multi Dimensional Gene Set Analysis.
OnASSIs Ontology Annotation and Semantic SImilarity software
OnASSIs Ontology Annotation and Semantic SImilarity software
Optimal Gene Extensions From Histone Modification ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
Phenotype Consensus ANalysis (PCAN)
Phenotype Consensus ANalysis (PCAN)
Platform Design Information Package Builder
Platform Design Information Package Builder
Platform Design Information Package Builder
Platform Design Information Package Builder
Position-Dependent Kernel Association Test
Position-Dependent Kernel Association Test
Prediction of chromatin looping interactions from ChIP-seq and sequence motifs
Protein annotation data package builder
Protein annotation data package builder
Protein Profiling
Protein Profiling
Querying annotation data from the high performance Cellbase web
Querying annotation data from the high performance Cellbase web services
Querying annotation data from the high performance Cellbase web services
RBioinf
RBioinf
Reactome Pathway Analysis
Reactome Pathway Analysis
Reactome Pathway Analysis
Representation and manipulation of genomic intervals and variables defined along a genome
Representation and manipulation of genomic intervals and variables defined along a genome
Representation and manipulation of genomic intervals and variables defined along a genome
Representation and manipulation of genomic intervals and variables defined along a genome
Retrieval from the DAVID bioinformatics data resource into R
Retrieval from the ENVISION bioinformatics data portal into R
Retrieval from the ENVISION bioinformatics data portal into R
R Interface to Ensembl Variant Effect Predictor
R Interface to Ensembl Variant Effect Predictor
R Interface to Ensembl Variant Effect Predictor
R interface to genome browsers and their annotation tracks
R interface to genome browsers and their annotation tracks
R Interface to UniProt Web Services
R Interface to UniProt Web Services
R Interface to UniProt Web Services
rnaSeq secondary analyses
rnaSeq secondary analyses
R Wrapper for DGIdb
R Wrapper for DGIdb
R Wrapper for DGIdb
R wrapper for the OMA REST API
Software infrastructure for efficient representation of full genomes and their SNPs
Software infrastructure for efficient representation of full genomes and their SNPs
Software to enable the smooth interfacing of different database packages
Software to enable the smooth interfacing of different database packages
Software to enable the smooth interfacing of different database packages
statistical analysis and visualization of functional profiles for genes and gene clusters
statistical analysis and visualization of functional profiles for genes and gene clusters
statistical analysis and visualization of functional profiles for genes and gene clusters
statistical analysis and visualization of functional profiles for genes and gene clusters
Statistical analysis of high-throughput RNAi screens
Statistical analysis of high-throughput RNAi screens
SummarizedExperiment container
SummarizedExperiment container
SummarizedExperiment container
SummarizedExperiment container
Summary, annotation and visualization of genomic data
Summary, annotation and visualization of genomic data
Summary, annotation and visualization of genomic data
The package can implement the network-based metabolite pathway identification of pathways.
Tool for converting GFF3 file format data to a GRanges Object
Tools for conducting enrichment analysis of MeSH
Tools for conducting enrichment analysis of MeSH
Tools for Connectivity Map-like analyses
Tools for Connectivity Map-like analyses
Tools for making and manipulating transcript centric annotations
Tools for making and manipulating transcript centric annotations
Tools for making and manipulating transcript centric annotations
Tools for manipulating GO and microarrays
Tools for manipulating GO and microarrays
Tools for manipulating GO and microarrays.
Transform and Filter SWATH Data for Statistical Packages
Transform and Filter SWATH Data for Statistical Packages
Transform and Filter SWATH Data for Statistical Packages
Utilities for manipulating chromosome and other 'seqname' identifiers
Utilities for manipulating chromosome and other 'seqname' identifiers
Utilities for manipulating chromosome and other 'seqname' identifiers
Utilities to compute, compare, and plot the agreement between ordered vectors of features (ie. distinct genomic experiments). The package includes Correspondence-At-the-TOP (CAT) analysis.
Utilities to compute, compare, and plot the agreement between ordered vectors of features (ie. distinct genomic experiments). The package includes Correspondence-At-the-TOP (CAT) analysis.
Very simple high level analysis of Affymetrix data
Very simple high level analysis of Affymetrix data
Visualise microarray and RNAseq data using gene ontology annotations
Visualise microarray and RNAseq data using gene ontology annotations
Visualise microarray and RNAseq data using gene ontology annotations
Visualise microarray and RNAseq data using gene ontology annotations
Visualise microarray and RNAseq data using gene ontology annotations
Workflow for Identifying Regulatory Elements from Chromatin Accessibility Assay Data
YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization
YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization
YARN: Robust Multi-Condition RNA-Seq Preprocessing and Normalization
Yet Another Gene Ontology Package