Marco Galardini - Associate Professor

Marco Galardini

Associate Professor

Hanover, Lower Saxony, Germany

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Summary

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Marco Galardini is an associate professor and computational biologist with 14 years of experience building large-scale genotype-to-phenotype pipelines and open-source tools for microbial genomics. Based in Hanover, he leads research at the intersection of comparative genomics, clinical and environmental microbiology, and evolutionary biology within the RESIST cluster and Twincore. He combines deep Python expertise and hands-on lab experience from postdoctoral work at EMBL-EBI and Boston University to translate high-throughput phenotyping and sequencing data into reproducible analyses and software. An active open-source contributor, he has improved core community tools such as Biopython (phenotype module) and Roary visualizations, reflecting a focus on practical data formats, plotting, and interoperability. He also brings an unexpected creative side—DIY music and small experiments—that feeds a curious, multidisciplinary approach to research and mentorship.

14 years of coding experience

1 year of employment as a software developer

Training, Bioinformatics, Training, Bioinformatics at Radboud University

Master’s Degree, Bioinformatics, Master’s Degree, Bioinformatics at Alma Mater Studiorum – Università di Bologna

Doctor of Philosophy (Ph.D.), Bioinformatics, Doctor of Philosophy (Ph.D.), Bioinformatics at Università degli Studi di Firenze

English, Italian, Spanish

Stackoverflow

Stats

1,407reputation

192kreached

7answers

11questions

Github Skills (22)

python10

pandas10

biopython10

bioinformatics10

genomics10

matplotlib9

data-visualizations9

json9

numpy9

data-visualisation9

data-visualization9

unit-testing8

scipy7

html6

jupyter-notebook6

Programming languages (10)

JavaShellC++CJavaScriptPerlHTMLJupyter Notebook

Github contributions (5)

sanger-pathogens/Roary

Jan 2016 - Mar 2018

Rapid large-scale prokaryote pan genome analysis

Role in this project:

Data Scientist

Contributions:8 commits, 6 PRs, 14 comments in 2 years 2 months

Contributions summary:Marco primarily contributed to the `roary_plots` component, focusing on the visualization of pan-genome data. Their work included adding node labels to phylogenetic trees, fixing display issues in the HTML and notebook outputs, and adding the ability to save plots in multiple formats. They also addressed deprecated functions in pandas and adjusted the tree positioning.

pathogengenomeglobal-healthbioinformatics-pipelinenext-generation-sequencing

biopython/biopython

Apr 2016 - Jun 2016

Official git repository for Biopython (originally converted from CVS)

Role in this project:

Back-end Developer

Contributions:1 review, 12 commits, 3 PRs in 1 month

Contributions summary:Marco primarily contributed to the `BioPython` library, focusing on the `phenotype` module. They introduced new functionality for handling Phenotype Microarray data, including classes for `PlateRecord` and `WellRecord` objects. The user also implemented JSON serialization and deserialization of the plate data, along with associated unit tests, improving the library's data input/output capabilities. Further contributions included improving the fitting method and associated tests for the WellRecord class.

git-repositoryphylogeneticspythondnagenomics

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