I’m Vijini Mallawaarachchi—I’m a Research Associate at the Flinders Accelerator for Microbiome Exploration, Flinders University.
I enjoy developing algorithms, writing code, reading and blogging.
My current research work is focused on algorithms and computational models related to construction of metagenome-assembled genomes (MAGs). Metagenomics involves the study of various genetic material obtained from the genomes found in microbial communities. A microbial community can contain a large number of organisms. My work focuses on developing methods and tools to investigate the taxonomic structure of a given metagenomic sample.
🔭I’m currently working on computational methods to resolve viral genomes 🌱I’m currently learning graph algorithms and flow decomposition techniques 📫How to reach me: email@example.com 🏠Check out my personal website: https://vijinimallawaarachchi.com 📝Check out my Medium Blog: https://vijini.medium.com/
GraphBin: Refined Binning of Metagenomic Contigs using Assembly Graphs
First automated tool to make use of assembly graphs to refine binning results from existing metagenomic contig-binning tools.
GraphBin2: Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs
Next generation of GraphBin that refines binning results from existing metagenomic contig-binning tools using assembly graphs. GraphBin2 also assigns contigs to multiple bins if they are shared between different species.
MetaCoAG: Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs
First stand-alone metagenomic contig-binning tool that makes use of assembly graphs apart from composition and coverage information for binning.
Phables: from fragmented assemblies to high-quality bacteriophage genomes
Resolving high-quality bacteriophage genomes from fragmented assemblies of viral metagenomic data using graph algorithms and flow decomposition techniques.