Hi! I'm Kari, and this is my old-fashioned (designed in 2001) homepage.
I have been writing and designing software professionally since the late nineties. The industries have been diverse, including social media, customer relationship management, and finance. Check my CV or LinkedIn profile for details.
When it comes to hobbies, I enjoy building things like electronic devices and playing musical instruments.
I'm currently a doctoral researcher (PhD student) working on genomic data visualization, bioinformatics, and cancer research at the Hautaniemi lab, University of Helsinki. I have an M.Sc. degree in data science and a B.Sc. in biology, both from the University of Helsinki, Finland.
I want to highlight two visualization tools I have developed during my PhD journey:
GenomeSpy is a flexible visualization toolkit for genomic data. It provides a visualization grammar for creating custom visualizations and implements a GPU-accelerated rendering engine for rapid interactions. GenomeSpy is particularly effective in exploring genome-aligned data across patient cohorts.
Jellyfish is a visualization tool for illustrating tumor evolution in settings where biological sampling is spatiotemporal, i.e., it has both a spatial dimension, such as different anatomical sites, and a temporal dimension representing different treatment time points. Jellyfish plot integrates phylogenetic and sample trees with subclonal compositions into a unified visual presentation.
Both works have received awards at the ISMB/ECCB conference, highlighting their innovative approaches to visualizing biological data.
E-mail: kari at karilavikka.fi
Academic e-mail: kari.lavikka at helsinki.fi
Other: Bsky, X, GitHub, LinkedIn, ORCID, Scopus, ResearchGate, Facebook, YouTube, IRC-Galleria
Public key: GPG