What is it?
MitoGEx is a platform application for mitochondrial DNA analysis. It integrates quality control, alignment, variant calling, annotation, and visualization into one pipeline. Useful for WGS, WES.
How does it work?
MitoGEx processes sequencing data through automated steps using tools like FastQC, BWA, GATK, Qualimap, and HaploGrep. It outputs QC summaries, VCFs, annotated variants, haplogroup classifications, and phylogenetic trees.
Features
- Pipeline with minimal user input
- Multi-sample support
- Static HTML output for sharing and review
- Supports both FastQ and BAM files
- Phylogenetic visualization
- Tabular data
System Requirements
- OS: Linux (tested on Ubuntu 22.04)
- CPU: 4 Core 8 Threads minimum
- RAM: 8 GB minimum
- Disk Space: ≥15 GB
- Internet: For updates and external databases
Contact
Team: Kongpop Jeenkeawpiam, Komwit Surachat, Pemikar Srifa, hGATc Team
Leader: Dr. Surasak Sangkhathat
Email: kongpop.je@gmail.com
Publications
Funding
This research was supported by Graduate scholarship from the Faculty of Medicine, Prince of Songkla University.