Blog posts


Make a Manhattan plot from a VCF file

5 minute read


A friend recently asked me to make her a Manhattan plot from a VCF (Variant Call Format) for some Plasmodium berghei SNPs. I was familiar with neither Manhattan plots nor VCFs, but we ended up with a decent-looking plot. This is far from the most sophisticated solution, but this post might help the SNP-naive (like me) looking for a simple way to go from VCF to Manhattan.

CRISPR-Cas9 editing in Plasmodium falciparum

4 minute read


This is my protocol for using a commercial Cas9 nuclease and custom synthesised guide RNA for CRISPR editing in P. falciparum. I don’t go into how I design the repair template, but to see some examples for HA-tagging and gene disruption, check out my lab book on Benchling.