Biocview "GenomeAnnotation"

Affinity test for identifying regularity Indels
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
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 Tool for Customizable and Reproducible Plotting of Sequencing Coverage Data
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
Client for GREAT Analysis
Client for GREAT Analysis
Collection of BioC2021 resources
Comprehensive Annotation of Predictive Features for Interval-based Genomic Data
Context-Aware Transcript Quantification from Long Read RNA-Seq data
Conveniently access PyRanges functionalities from Bioconductor
Conveniently import and query gene models
Conveniently import and query gene models
Conveniently import and query gene models
Coordinate-Based Genomic Visualization Package for R
Coordinate-Based Genomic Visualization Package for R
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
Efficient graph representation and manipulation in Bioconductor
Estimates Isoform Specific RPF Footprint Densities
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
Generation of null ranges via bootstrapping or covariate matching
Genometric Correlation package
GenomicDistributions: fast analysis of genomic intervals with Bioconductor
GenomicOperations
GenomicOperations
gQTLBase: infrastructure for eQTL, mQTL and similar studies
gQTLstats: computationally efficient analysis for eQTL and allied studies
GREAT Analysis - Functional Enrichment on Genomic Regions
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
HMM-Based Model for Genotyping and Cross-Over Identification
HMM-Based Model for Genotyping and Cross-Over Identification
HMMRATAC - a semi-supervised machine learning approach for identifying open chromatin regions from ATAC-Seq data using Hidden Markov Models
Identification and classification of plant transcription factors
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
Mapping, quantification and variant analysis of sequencing data
Mean Alterations Using Discrete Expression
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
Multi-function software that performs enrichment, functionally-informed genetic fine-mapping and gene mapping
Multi-function software that performs enrichment, functionally-informed genetic fine-mapping and gene mapping
Mutation on Open Reading FramE annotation
NoRCE: Noncoding RNA Sets Cis Annotation and Enrichment
NoRCE: Noncoding RNA Sets Cis Annotation and Enrichment
Optimising the Definition of Expressed Regions
Optimized Functional Annotation Of ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
Optimized Functional Annotation Of ChIP-seq Data
Pipeline for single cell multi-omic data pre-processing
pipeline for single cell RNA-seq data analysis
Prediction of intronic splicing branchpoints
Prediction of intronic splicing branchpoints
Predict MicroExons in Plant 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
Reference-guided isoform reconstruction and quantification for long read RNA-Seq data
Representation and manipulation of genomic intervals
Representation and manipulation of genomic intervals
Representation and manipulation of genomic intervals; demo with github actions binary generation
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
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
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
Visualization of genomic structural variants