Профиль

Charles Wei

PhD student at Cambridge | AMR | genomic surveillance | microbiome

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Публикации
Charles Wei

Being exposed to the importance and nuances of engagement with the public and patient, policy, and stakeholders at this @target-amr.bsky.social conference. More stuff to think about! I presented my work on evaluating genomic surveillance methods for Shigella sonnei. doi.org/10.64898/202...

doi.orgTARGetAMR

🎉 We’re back for another insightful day! 🧬 Building the future of AMR Genomics 💡 Kicking off with our incredible, short talk abstract submission winners 🙌 Here’s to another amazing day! #TARGetAMR26

Charles Wei

It took years after my masters to publish BaGPipe, now it's out! It's a Nextflow pipeline to run end-to-end bacterial GWAS, heavily tested and benchmarked on different datasets, and now in good hands of the Sanger's Pathogen Informatics Team. link.springer.com/article/10.1...

BaGPipe: an automated, reproducible, and flexible pipeline for bacterial genome-wide association studies - BMC MicrobiologyBMC Microbiology - Microbial genome-wide association studies (GWAS) are crucial for linking genetic variation to phenotypic traits in bacteria. However, current tools often involve complex manual...link.springer.com
Charles Wei

Tired of fragmented bacterial GWAS workflows? Try BaGPipe (Bacterial GWAS Pipeline)—a fully automated, flexible Nextflow pipeline integrating Pyseer for streamlined association studies. Reproducible. Scalable. Efficient. doi.org/10.1101/2025... #Nextflow #BacterialGWAS #AMR #Bioinformatics

BaGPipe: an automated, reproducible, and flexible pipeline for bacterial genome-wide association studiesMicrobial genome-wide association study (GWAS) tools often require manual data processing steps, lack comprehensive workflows, and are limited by scalability issues, thus hindering the exploration of ...doi.org