• Differential Expression Analysis Using a Trinity Assembly
• Running Differential Expression Analysis
• Identifying DE Features: No Biological Replicates (Proceed with Caution)
• Identifying DE features: With biological replicates (PREFERRED)
• Differential Expression Output Explained
• Interactive Volcano and MA Plots using Glimma
• Extracting and clustering differentially expressed transcripts
• Gene Ontology (GO) Enrichment Analysis on Differentially Expressed Genes
• Automatically Partitioning Genes into Expression Clusters
• Interactive analysis of DE features using MeV
• Adding functional annotations to your expression matrix
• References
• EdgeR:
• DESeq2
• Limma/Voom
• ROTS