About me

Research

I am an assistant professor at the London School of Hygiene and Tropical Medicine.
Most of my time is spent looking at the genomic diversity of Mycobacterium tuberculosis using next generation sequencing as part of the pathogenseq group.
My research entails the design and implementation of data analysis pipelines to process and collate terabytes of data from various structured and unstructured sources to provide biological insights such as population structure, transmission and drug resistance

Code

I code in Python R Perl Javascript and html (also learning Rust). Here is a summary of my github commits:
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Publications

Please check out my orcid for a complete list of my publications.

Selected Projects

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TB-Profiler

Predicting tuberculosis drug resistance from NGS data

More info
Tuberculosis NGS Software
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COVID-Profiler

Automated analysis of Sars-Cov-2 sequencing data

More info
Sars-Cov-2 NGS Python
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TB-GWAS

Bacterial GWAS to detect drug resistance mutations

More info
Analysis Tuberculosis NGS
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Mycobacterium aurum

Creating a reference genome for M. aurum

More info
Analysis Tuberculosis NGS
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Sequencing variability

Assessing the variability of Mtb sequencing

More info
Analysis Tuberculosis NGS
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Protein structural modelling

Analysing mutation effects on protein structure

More info
Tuberculosis Protein structure

Contact me