Bioconductor Packages

Tools for counting and visualising mutations in a target location

Queries the Human Cell Atlas

Power analysis for CyTOF experiments

Robust prediction of clinical outcomes using cytometry data without cell gating

Conditional Differential Analysis for Flow and Mass Cytometry Experiments

Low Dimensions projection of cytometry samples

A GatingML Interface for Cross Platform Cytometry Data Sharing

Automation and visualization of flow cytometry data analysis pipelines

GUI's for visualization of flow cytometry data analysis pipelines

Tools for the Differential Analysis of Proteins Abundance with R

Differential Composition Analysis Transformed by a Similarity matrix

Tools for curating, analyzing, and manipulating biological sequences

Differential gene expression data formats converter

Two-sample tests on a graph

Report of DEG analysis

Identify Differentially Expressed Genes from RNA-seq data

Identifies differentially expressed genes with respect to other local genes

Differential Enrichment Scan 2

Differential gene expression analysis based on the negative binomial distribution

DESpace: a framework to discover spatially variable genes and differential spatial patterns across conditions

Differential Expressed Windows Based on Negative Binomial Distribution

Inference of differential exon usage in RNA-Seq

a tool to perform statistical analysis of differential protein expression for quantitative proteomics data.

DEsingle for detecting three types of differential expression in single-cell RNA-seq data

DEsubs: an R package for flexible identification of differentially expressed subpathways using RNA-seq expression experiments

Gene Selection

Differentially Methylated Cytosines via a Bayesian Functional Approach

Differentially Methylated CpG using Hidden Markov Model

Detection of Differentially Methylated Regions

Differentially Methylated Regions Caller

Methylation array and sequencing spatial analysis methods

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 Copy Number Data Analysis

Identification of gene fusions using paired-end sequencing

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

Dispersion shrinkage for sequencing data

Dynamic Transcriptome Analysis

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

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

Helper Functions for LIBD Deconvolution

Deep characterization of cancer drugs

Probabilistic association of DEGs to CREs from differential data

DegNorm: degradation normalization for RNA-seq data

DenoIST: Denoising Image-based Spatial Transcriptomics data

Differential Binding Analysis of ChIP-Seq Peak Data

Differentially regulated genes from scRNA-seq data

Normalization of Single-Cell mRNA Sequencing Data