(Meta-)genome screening for functional and natural product gene sequences

zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)

lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters

Detects Outliers and plots genomic clines from BGC output, and extends the plotting functionality of INTROGRESS to Correlate genomic clines and hybrid indices with Environmental Variables

BGCViz - a shiny web app, which uses genomic coordinates of BGCs from different sources for a comprehensive comparison.

Methods and classes to support Biosynthetic Gene Cluster analysis

The Functional Order (FunOrder) tool - Identification of essential biosynthetic genes through computational molecular co-evolution – novel tool that allows automated identification of essential genes in a biosynthetic gene clusters (BGC) based solely on genomic data

File conversion scripts for DNA sequence data

BGCViz - a shiny web app, which uses genomic coordinates of BGCs from different sources for a comprehensive comparison.

BGC Official Site

My final thesis project work from my Biomedical Genomics MSc undertaken at NUIG, 2021. Includes Nextflow, Snakemake, Bash, Python and R scripts.