Biocview "FunctionalGenomics"

Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining
Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining
Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining
Analyze massively parallel reporter assays
Annotation of Genomic Regions to Genomic Annotations
Annotation of Genomic Regions to Genomic Annotations
Annotation of Genomic Regions to Genomic Annotations
An R package to detect chromatin state switches from epigenomic data
An R package to detect chromatin state switches from epigenomic 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)
A tool for differential expression analysis and DEGs based investigation to complex diseases by bi-clustering analysis
Basic peak calling on STARR-seq data
Basic peak calling on STARR-seq data
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns.
Companion package to chipenrich
Detection and inference of differentially methylated regions from Whole Genome Bisulfite Sequencing
Expression Weighted Celltype Enrichment
Expression Weighted Celltype Enrichment
Extending guilt by association by degree
Extending guilt by association by degree
Extending guilt by association by degree
Flexible Heatmaps for Functional Genomics and Sequence Features
Flexible Heatmaps for Functional Genomics and Sequence Features
Functional Gene Networks derived from biological enrichment analyses
Functional Gene Networks derived from biological enrichment analyses
Gene Set Enrichment For ChIP-seq Peak Data
Gene Set Enrichment For ChIP-seq Peak Data
Global visualization tool of genomic data
Global visualization tool of genomic data
gQTLBase: infrastructure for eQTL, mQTL and similar studies
gQTLBase: infrastructure for eQTL, mQTL and similar studies
Inference and visualisation of Single-Cell RNA-seq data as a hierarchical tree structure
Inference and visualisation of Single-Cell RNA-seq data as a hierarchical tree structure
Integrative analysis of pooled CRISPR functional genetic screens
Location overlap analysis for enrichment of genomic ranges
Location overlap analysis for enrichment of genomic ranges
Loci2path: regulatory annotation of genomic intervals based on tissue-specific expression QTLs
Loci2path: regulatory annotation of genomic intervals based on tissue-specific expression QTLs
Locus overlap analysis for enrichment of genomic ranges
Locus overlap analysis for enrichment of genomic ranges
Methylation-Based Inference of Regulatory Activity
Normalization and difference calling in ChIP-seq data
Normalization and difference calling in ChIP-seq data
Normalization and difference calling in ChIP-seq data
Prediction of chromatin looping interactions from ChIP-seq and sequence motifs
Promoter identification from large-scale TSS profiling data
Promoter identification from large-scale TSS profiling data
Promoter identification from large-scale TSS profiling data
Rapid Integration of Term Annotation and Network resources
Rapid Integration of Term Annotation and Network resources
Rapid Integration of Term Annotation and Network resources
R Interface with InterMine-Powered Databases
R Interface with InterMine-Powered Databases
R Interface with InterMine-Powered Databases
Rothstein Lab SGA Analysis Tools
R package for RIVER (RNA-Informed Variant Effect on Regulation)
R package for RIVER (RNA-Informed Variant Effect on Regulation)
R package for RIVER (RNA-Informed Variant Effect on Regulation)
R package for RIVER (RNA-Informed Variant Effect on Regulation)
R package for the statistical assessment of cell state hierarchies from single-cell RNA-seq data
R package for the statistical assessment of cell state hierarchies from single-cell RNA-seq data
R Wrapper for DGIdb
R Wrapper for DGIdb
R Wrapper for DGIdb
Suite of Functions for Pooled Crispr Screen QC and Analysis
Suite of Functions for Pooled Crispr Screen QC and Analysis
Suite of Functions for Pooled Crispr Screen QC and Analysis
Summarize, Analyze and Visualize MAF Files
Summarize, Analyze and Visualize MAF Files
Summarize, Analyze and Visualize MAF Files
TCGA Workflow Analyze cancer genomics and epigenomics data using Bioconductor packages
TCGA Workflow Analyze cancer genomics and epigenomics data using Bioconductor packages
Tools for working with ScreenMill data