Bioconductor Packages

A Tool for Optimizing Combinations of DNA Barcodes Used in Multiplexed Experiments on Next Generation Sequencing Platforms

A tool for creating and analysing DNA barcodes used in Next Generation Sequencing multiplexing experiments

DNA Cyclizability Prediction

Differential Network Enrichment Analysis for Biological Data

Disease Ontology Semantic and Enrichment analysis

Genome-wide Detection of Differential ORF Usage

Convenient functions to streamline your single cell data analysis workflow

Differential transcript usage and tuQTL analyses with Dirichlet-multinomial model in RNA-seq

Data Mining for RNA-seq data: normalization, feature selection and classification

DeMAND

Cell type-specific deconvolution of heterogeneous tumor samples with two or three components using expression data from RNAseq or microarray platforms

DeeDeeExperiment: An S4 Class for managing and exploring omics analysis results

Protein Interactions and Networks with Compounds based on Sequences using Deep Learning

DegNorm: degradation normalization for RNA-seq data

A unified framework for working transparently with on-disk and in-memory array-like datasets

R package for sparse and out-of-core arithmetic and decomposition of Tensor

DenoIST: Denoising Image-based Spatial Transcriptomics data

Inferring tumor-specific cancer dependencies through integrating ex-vivo drug response assays and drug-protein profiling

Determination of essential phenotypic elements of clusters in high-dimensional entities

Differential Binding Analysis of ChIP-Seq Peak Data

DiffLogo: A comparative visualisation of biooligomer motifs

Differentially regulated genes from scRNA-seq data

Normalization of Single-Cell mRNA Sequencing Data

Dirichlet-Multinomial Mixture Model Machine Learning for Microbiome Data

Interactive Workflow for Discovering Rhythmicity in Biological Data

Identification and Annotation of Protein Hotspot Residues

A DownStream Chemo-Proteomics Analysis Pipeline

Drivernet: uncovering somatic driver mutations modulating transcriptional networks in cancer

Comparison of disease and drug profiles using Gene set Enrichment Analysis

Estimating Absolute Abundance from Microbial Spike-in Controls

Improving replicability in single-cell RNA-Seq cell type discovery

Analysis of the data from RNA duplex probing experiments

Dynamic document tools

Image processing and analysis toolbox for R

An R package for gene and isoform differential expression analysis of RNA-seq data

Unified Approach for Simultaneous Gene Clustering and Differential Expression Identification

EBcoexpress for Differential Co-Expression Analysis

Exploratory Data Analysis and Normalization for RNA-Seq

Extending guilt by association by degree

Ensemble of Gene Set Enrichment Analyses

Inferring Regulatory Element Landscapes and Transcription Factor Networks Using Cancer Methylomes

An R Package for Estimating Copy Number Levels of Viral Genome Segments Using Base-Resolution Read Depth Profile

Quality control and analysis tools for Illumina DNA methylation BeadChip

Empirical RNA-seq Sample Size Analysis

Expression Weighted Celltype Enrichment

Uses Brown's method to combine p-values from dependent tests

Predicting Disease Progression Based on Methylation Correlated Blocks using Ensemble Models

a Global Weighted Model for Disease Ontology Enrichment Analysis

Making Enriched Heatmaps

Seamless navigation through combined results of set-based and network-based enrichment analysis