Bioconductor Packages

Co-expression Modules identification Tool

Expression Weighted Celltype Enrichment

An effective identification of alternative splicing events using junction arrays and RNA-Seq data

GEOexplorer: a webserver for gene expression analysis and visualisation

Pipeline for augmented co-expression analysis

NanoString GeoMx Tools

LimROTS: A Hybrid Method Integrating Empirical Bayes and Reproducibility-Optimized Statistics for Robust Differential Expression Analysis

MAGAR: R-package to compute methylation Quantitative Trait Loci (methQTL) from DNA methylation and genotyping data

NanoString nCounter Tools

SGCP: A semi-supervised pipeline for gene clustering using self-training approach in gene co-expression networks

Artificial Components Detection of Differentially Expressed Genes

GUI for limma Package with Affymetrix Microarrays

The Discordant Method: A Novel Approach for Differential Correlation

Assess Differential Gene Expression Experiments with ERCC Controls

A tool to use GO Subtrees to Tag and Annotate Genes within a set

Integrates DNA methylation data with gene expression in a single gene network

Linear Models for Microarray and Omics Data

GUI for limma Package With Two Color Microarrays

Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and exon arrays and Human Transcriptome Array 2.0)

Rotation based gene set analysis

sigFeature: Significant feature selection using SVM-RFE & t-statistic

Top Confident Effect Sizes

RNA-binding protein motif analysis