Interested in microbial ecology and evolution.
Peer reviewed + preprint studies I have contributed to can be found on my Google Scholar π¨βπ
π = on Bioconda; π = on Docker Hub; π₯§ = on PyPi
- zol (& fai): π π suite for evolutionary and functional analysis of gene clusters (co-located sets of genes).
- skDER (& CiDDER): π programs for genomic dereplication using ANI and pan-genome saturation approximation.
- lsaBGC-Pan: π π suite/workflow for pan-BGC-ome analyses.
- codoff: ππ₯§ program to statistically assess differences in codon usage between a focal region and the background genome.
- lsaBGC: π suite for genomic and metagenomic mining of micro-diversity in BGCs and general evolutionary analysis.
- ConSequences: programs to find long (>10 kb) contiguous and conserved (> 99% identity) segments across genomes associated with specific geographic locations.
- seQouia: framework for diverse omics workflows, primarily focused on QC, processing and analysis of bacterial (meta-)genomic sequencing datasets.
- AncestralGeneRator: programs to simplify ancestral state reconstruction of ortholog group copy counts across phylogeies.
- PerMutation: Programs for statistical determination of essential and conditionally essential genes from E. faecalis TnSeq datasets.