Biocview "GenomeAnnotation"

Affinity test for identifying regulatory SNPs
Affinity test for identifying regulatory SNPs
Analysis of alternative splicing using RNA-Seq
Analysis of alternative splicing using RNA-Seq
Analysis of alternative splicing using RNA-Seq
Analyze the Neighborhood (Upstream/Downstream Neighbors) of Genes
Annotation of Genomic Regions to Genomic Annotations
Annotation of Genomic Regions to Genomic Annotations
An R package for analysis of massive parallel sequencing based RNA structure probing data
An R package for analysis of massive parallel sequencing based RNA structure probing data
A RangedSummarizedExperiment Container for VCF/GDS Data with GDS Backend
A RangedSummarizedExperiment Container for VCF/GDS Data with GDS Backend
A Software Suite for Shallow Sequencing Copy Number Analysis
Assess Gene Predictions Using Proteomics and Evolutionary Conservation
Assess Gene Predictions Using Proteomics and Evolutionary Conservation
A unified framework for working transparently with on-disk and in-memory array-like datasets
A unified framework for working transparently with on-disk and in-memory array-like datasets
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Base Functions for Bioinformatics
Client for GREAT Analysis
Client for GREAT Analysis
Client for GREAT Analysis
Conveniently access PyRanges functionalities from Bioconductor
Conveniently import and query gene models
Conveniently import and query gene models
Coordinate Covariation Analysis
Coordinate Covariation Analysis
Coordinate Covariation Analysis
Data and functions for dealing with microRNAs
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
DNA IP-seq data analysis
DNA IP-seq data analysis
DNA IP-seq data analysis
DNA IP-seq data analysis
DNA IP-seq data analysis
dplyr-based Access to Bioconductor Annotation Resources
dplyr-based Access to Bioconductor Annotation Resources
Efficient graph representation and manipulation in Bioconductor
Efficient graph representation and manipulation in Bioconductor
EggNOG
fcScan for detecting clusters of coordinates with user defined options
fcScan for detecting clusters of coordinates with user defined options
Finding the DNA and protein sequences in a list of genomic or proteomic loci
Finding the DNA and Protein Sequences of Any Genomic or Proteomic Loci
Generate and Manipulate Genomic Ranges
Genometric Correlation package
GenomicOperations
GenomicOperations
gQTLBase: infrastructure for eQTL, mQTL and similar studies
gQTLstats: computationally efficient analysis for eQTL and allied studies
Grey Lists -- Mask Artefact Regions Based on ChIP Inputs
GWAS Analysis of Regulatory or Functional Information Enrichment with LD correction
HDF5 backend for DelayedArray objects
HDF5 backend for DelayedArray objects
Hi-C Annotation and Graphics Ensemble
HMMRATAC - a semi-supervised machine learning approach for identifying open chromatin regions from ATAC-Seq data using Hidden Markov Models.
Illumina 450K methylation array spatial analysis methods
Interval-Wise Testing for Omics Data
Interval-Wise Testing for Omics Data
Introduce *Ranges to bedtools users
Introduce *Ranges to bedtools users
Locus overlap analysis for enrichment of genomic ranges
Locus overlap analysis for enrichment of genomic ranges
Locus overlap analysis for enrichment of genomic ranges
Making 2D Hilbert Curve
Making 2D Hilbert Curve
Making 2D Hilbert Curve
Making Enriched Heatmaps
Making Enriched Heatmaps
Making Enriched Heatmaps
Manipulation of SQLite-based annotations in Bioconductor
Manipulation of SQLite-based annotations in Bioconductor
Manipulation of SQLite-based annotations in Bioconductor
Methylated CpGs Set Enrichment Analysis
Methylated CpGs Set Enrichment Analysis
Methylation array and sequencing spatial analysis methods
Methylation array and sequencing spatial analysis methods
Methylation array and sequencing spatial analysis methods
Methylation-Based Inference of Regulatory Activity
Methylation-Based Inference of Regulatory Activity
Mutation on Open Reading FramE annotation
NoRCE: Noncoding RNA Sets Cis Annotation and Enrichment
NoRCE: Noncoding RNA Sets Cis Annotation and Enrichment
Optimized Functional Annotation Of ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
PANTHER
pipeline for single cell RNA-seq data analysis
pipeline for single cell RNA-seq data analysis
Prediction of intronic splicing branchpoints
Prediction of intronic splicing branchpoints
Produces Summaries and Plots of Features Distributed Across Genomes
Promoter identification from large-scale TSS profiling data
Promoter identification from large-scale TSS profiling data
Quantitative DNA Sequencing for Chromosomal Aberrations
Quantitative DNA Sequencing for Chromosomal Aberrations
Representation and manipulation of genomic intervals
Representation and manipulation of genomic intervals
RiboseQC, a Comprehensive Ribo-Seq Analysis Tool
R Interface with InterMine-Powered Databases
R Interface with InterMine-Powered Databases
R Interface with InterMine-Powered Databases
R Interface with InterMine-Powered Databases
RNA Centric Annotation System
RNA Centric Annotation System
RTIGER: A Robust HMM-based Model for genotyping-by-sequencing and Recombination breakpoint identification.
samExploreR package: high-performance read summarisation to count vectors with avaliability of sequencing depth reduction simulation
samExploreR package: high-performance read summarisation to count vectors with avaliability of sequencing depth reduction simulation
Significance-based Modules Integrating the Transcriptome and Epigenome
Significance-based Modules Integrating the Transcriptome and Epigenome
Significance-based Modules Integrating the Transcriptome and Epigenome
Subread Sequence Alignment and Counting for R
SummarizedExperiment container
SummarizedExperiment container
SummarizedExperiment container
The Genomic STate ANnotation Package
Tools for computational epigenomics
Tools for computational epigenomics
Tools for region- and process-centric analyses of multiple assay types
Transcript Quantification Import with Automatic Metadata
Transcript Quantification Import with Automatic Metadata
Utilities for manipulating chromosome names, including modifying them to follow a particular naming style
Utilities for manipulating chromosome names, including modifying them to follow a particular naming style