James Ferguson
Genomics Software Engineer at Garvan Institute of Medical Research
Sydney, New South Wales, Australia
Summary
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RockstarJames Ferguson is a Genomics Software Engineer based in Sydney with a decade of hands-on experience building bioinformatics tools and clinical lab software, specializing in long-read sequencing and clinical genomics. He combines research-grade algorithm development from his early work with Oxford Nanopore data with production engineering for pathology LIMS, test automation, and quality-control pipelines in private healthcare. At Garvan Institute he bridges research and operational genomics, shipping tools that support diagnostic workflows and large-scale sequencing programs. A pragmatic coder comfortable across Python, C, Perl and shell, he has also co-founded a diagnostics startup, bringing product and clinical deployment experience to fast-moving projects. Colleagues would recognize his knack for fixing “what broke” in both labs and legacy systems—hence the trademark “weird” code that’s unmistakably his.
10 years of coding experience
7 years of employment as a software developer
Stackoverflow
23reputation
26kreached
8answers
0questions
Github Skills (112)
converting10
eel10
genome-assembly10
genomics10
autoencoder10
guppy10
cytoscapejs10
bioinformatics10
signal-processing9
convolutional-neural-networks9
electrophysiology9
libtorch9
rna-seq9
package-management9
signal9
Programming languages (12)
Github contributions (5)
Psy-Fer/fast5_fetcher
Aug 2018 - Feb 2019
A tool for fetching nanopore fast5 files after filtering via demultiplexing, alignment, or other, to improve downstream processing efficiency
Contributions:2 releases, 28 commits, 23 pushes in 5 months
fetchingnanoporealignmentdemultiplexingstdin
Psy-Fer/misc
May 2021 - Aug 2022
Contributions:8 commits, 7 pushes, 1 branch in 1 year 4 months
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