Rachel Colquhoun
Postdoctoral Researcher at Wellcome Trust Centre for Human Genetics, University of Oxford
City of Edinburgh, Scotland, United Kingdom
Summary
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Rockstar🎓
Top SchoolRachel Colquhoun is a postdoctoral researcher at the University of Edinburgh with 11 years' experience applying statistical and software engineering skills to genomic and metagenomic data. She develops bioinformatics pipelines for viral and microbial sequencing, leveraging pangenome reference graphs and nanopore sequencing to dissect bacterial genomic variation. Trained as a DPhil in Genomic Medicine and Statistics at Oxford and with an MMath in Mathematics, she brings a strong quantitative background to applied genomics. Rachel also contributes to open-source projects such as cov-lineages/pango-designation, improving build and packaging workflows to support lineage designation tools used widely in pathogen surveillance. Based in Edinburgh, she combines rigorous methodological research with practical tooling that accelerates real-world genomic surveillance.
11 years of coding experience
Doctor of Philosophy (Ph.D.), Genomic Medicine and Statistics, Doctor of Philosophy (Ph.D.), Genomic Medicine and Statistics at University of OxfordGCE A-levels and AS-levels, Mathematics, Further Mathematics, Chemistry, Physics, German, A*A*A*Aa, GCE A-levels and AS-levels, Mathematics, Further Mathematics, Chemistry, Physics, German, A*A*A*Aa at Hills Road Sixth Form CollegeGCSE, 11 A*s including Maths and English, GCSE, 11 A*s including Maths and English at Perse School for Girls, Cambridge
English, French, German, python, perl, c++11
Github Skills (7)
software-packaging10
package-management10
python10
setuptools10
command-line-interface8
cli8
command-line8
Programming languages (13)
Github contributions (5)
cov-lineages/pango-designation
Jun 2021 - Dec 2021
Repository for suggesting new lineages that should be added to the current scheme
Role in this project:
Back-end Developer
Back-end DeveloperContributions:2 releases, 14 commits, 3 PRs in 6 months
Contributions summary:Rachel primarily worked on setting up and improving the project's build and install process. They added a `setup.py` file, defined the program name, and updated the version information. Their contributions also included correcting typos and restructuring the project to ensure proper package discovery, and a command line entry point. Finally, they updated the version and made some more changes to the init file to release aliases.
schemelineages
COG-UK/datapipe
Jan 2021 - Mar 2022
Nextflow implementation of grapevine
Contributions:5 releases, 140 commits, 14 PRs in 1 year 1 month
grapevinenextflow
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