Marcus Fedarko

Hi! I'm a grad student in computer science at the University of California, San Diego working in the Pevzner Lab. I develop methods for the assembly and visualization of microbiome sequencing data.

Before grad school I was an undergraduate student at the University of Maryland, where I worked in the Pop Lab.

I can be reached via email at mfedarko (at) ucsd (dot) edu.

That's probably it for now.

Curriculum Vitae GitHub Google Scholar

Research projects

(This is not an exhaustive list; there are a few other things in the oven.)

MetagenomeScope Thesis
Visualization tool for (meta)genomic assembly graphs.
Qurro
Visualization tool for log-ratios of compositional data.
EMPress
Visualization tool for (phylogenetic) trees and associated data.
strainFlye
Pipeline for the analysis of (rare) mutations in metagenomes.
wotplot
Library for creating and visualizing dot plot matrices.

Other writing

LaTeX Guide for new users PDF
Final project for ENGL 390H (Spring 2016, UMD).
Statement of Purpose for UCSD PDF
I mean, I applied to a bunch of other grad schools, so I have a bunch of other slightly different statements lying around. But UCSD is the one I ended up going to, so this is the one I'm uploading here.
Research Exam for UCSD Report
The research exam is a required step for PhD students in UCSD's computer science department. Note that I completed my research exam in 2021 (when the department required that students write a survey paper); their requirements have since been relaxed to allow students to reuse existing papers for the research exam.