Marek Cmero
Senior Research Officer (Spatial Omics Data Analytics Hub)
Melbourne, Victoria, Australia
Summary
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Senior🎓
Top SchoolMarek Cmero is a senior research officer and bioinformatics engineer with 11 years of experience building production-grade sequencing and spatial-omics workflows at leading Australian institutes. He leads pipeline design for WEHI’s Spatial Omics Data Analytics Hub and has a track record of modernising legacy scientific workflows into portable, efficient systems using Nextflow, Snakemake and cloud-friendly transfer solutions. His work combines computational method development (including a Nature Communications–published ML algorithm used across thousands of cancer genomes) with pragmatic tooling for labs—automated data transfers, CI-enabled pipelines and project orchestration via APIs. Marek bridges deep statistical and algorithmic expertise from his PhD with practical engineering skills in Python, Groovy, R and SQL, delivering reproducible, scalable analyses that power published research. Colleagues rely on him to turn complex experimental needs into robust, well-documented software that has been reused across institutions. Unexpectedly, his solutions often improve lab operations as much as they do compute—evidenced by large-scale automated transfers (>1TB per run) and collaborative workflow systems that materially increased lab throughput.
11 years of coding experience
8 years of employment as a software developer
Bachelor of Computer Science/Bachelor of Commerce, Systems, Information Management, Entertainment Technologies, Finance (Corporate), Bachelor of Computer Science/Bachelor of Commerce, Systems, Information Management, Entertainment Technologies, Finance (Corporate) at The University of Western AustraliaThe University of Melbourne
English, Slovak
Github Skills (41)
package-management10
conda10
structural-variation10
transcriptomics10
bioconductor10
sequencing10
equivalence10
rna-seq10
bioinformatics10
genomics10
seq9
pipeline9
bioconda9
science9
r7
Programming languages (7)
Github contributions (5)
Oshlack/MINTIE-paper-analysis
Apr 2020 - Sep 2021
Contributions:2 releases, 35 pushes, 1 branch in 1 year 5 months
WEHIGenomicsRnD/G000204_duplex
Sep 2021 - Mar 2025
Contributions:73 pushes, 1 branch in 3 years 6 months
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