COTEGIN is an integrated RNA-seq analysis platform designed to facilitate biologically interpretable transcriptomic workflows through a unified graphical environment.
Main features
RNA-seq Data Processing
- Reference genome management
- HISAT2-based sequence alignment
- SAM/BAM conversion and processing
- Quality and length filtering
Gene Expression Quantification
- Gene-level quantification using featureCounts
- Support for multiple experimental groups
Differential Expression Analysis
- Statistical analysis using DESeq2
- Identification of significantly altered genes
- Interactive result exploration
- Volcano plots and MA plots
Functional Interpretation
- Functional enrichment analysis
- Gene Ontology (GO) exploration
- KEGG and Reactome pathway analysis
- Biological interpretation of transcriptomic changes
Coexpression and Network Analysis
- Gene coexpression analysis
- Differential coexpression analysis
- Transcriptomic rewiring analysis
- Gene interaction network exploration
Data Visualization
- Principal Component Analysis (PCA)
- Heatmaps
- Volcano plots
- MA plots
- Network visualization
User-Friendly Design
- Graphical user interface (GUI)
- Integrated workflow from raw data to biological interpretation
- Local and cloud-compatible execution