Farah Khan
Lecturer at University of Melbourne
Melbourne, Victoria, Australia
Summary
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Senior🎓
Top SchoolFarah Khan is an early-career researcher and Lecturer at the University of Melbourne with a decade of experience bridging computational bioinformatics research and university teaching. Her PhD work centers on provenance in bioinformatics workflows, enabling interoperable, auditable computational analyses—a focus she has translated into practical contributions to the Common Workflow Language reference implementation by adding provenance-tracking Research Object support. She designs and teaches core computing and information systems subjects at both undergraduate and graduate levels, and has extensive hands-on tutoring and course design experience across database systems, web technologies, and foundations of computing. Farah combines strong software development skills (Python, Bash, cloud portability) with domain expertise in genomic data analysis and open science practices. Her background includes industry-facing software work to containerize GC-MS metagenomics pipelines for cloud execution, reflecting a knack for making research tools reproducible and portable. Based in Melbourne, she brings a rare mix of pedagogy, research rigor, and open-source bioinformatics engineering.
10 years of coding experience
5 years of employment as a software developer
MS, Bioinformatics, 3.79, MS, Bioinformatics, 3.79 at University of Illinois, Urbana ChampaignBS, Bioinformatics, 3.86, BS, Bioinformatics, 3.86 at COMSATS Institute of Information Technology, IslamabadBachelor of Science - BS, Bioinformatics, Bachelor of Science - BS, Bioinformatics at COMSATS Institute of Information and TechnologyThe University of Melbourne
Urdu, English
Github Skills (4)
ccl10
workflow-engine10
python10
json9
Programming languages (3)
Github contributions (5)
common-workflow-language/cwltool
Jul 2017 - Sep 2018
Common Workflow Language reference implementation
Role in this project:
Back-end Developer
Back-end DeveloperContributions:231 commits, 5 PRs, 173 pushes in 1 year 2 months
Contributions summary:Farah's contributions focused on the implementation of provenance tracking within the Common Workflow Language (CWL) tool. They added arguments and generated components, specifically creating a Research Object to capture workflow execution details, including output file paths and checksums. The user integrated output objects and their related files into the provenance profile, while also capturing the structure and steps of the workflow run. The user also modified the primary and secondary job files.
containerssciencelanguage-referencecwlcommonwl
FarahZKhan/workflows
Dec 2015 - Dec 2015
Contributions:60 pushes, 1 branch in 10 days
workflowsworkflow
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