Welcome to the "Computational Methods for Paleogenomics and Comparative Genomics" group of Cedric Chauve, Department of Mathematics at Simon Fraser University.

The research of our group focuses currently on various problems in computational biology, with a strong focus on comparative genomics and cancer genomics. We are working on various problems related to phylogenomics (the construction and analysis of gene families and gene trees), genome rearrangements and the reconstruction of ancestral gene orders, pathogen genomics and cancer genomics. We are also working on machine-learning algorithms for the analysis of large-scale flow cytometry data.

See our Research page for more details.

News and announcements

• December 2024: Congratulations to Piyush Agarwal for defending his MSc thesis "Inference of the effective population size from genomic variation data using a divide & conquer strategy".
• November 2024: Our paper "PlasEval: a framework for comparing and evaluating plasmid detection tools" has appeared in BMC Bioinformatics.
• October 2024: Welcome to Andeas Rempel, a visiting PhD student from Bilefeld Uiversity, who will be with us until March 2025.
• September 2024: Congratulations to Baraa Oabi for the successful defence of his PhD.
• September 2024: Welcome to Rene Roy, a new MSc student in our goup.
• September 2024: Our paper "A vector representation for phylogenetic trees" has been accepted for publication in Philosophical Transactions of the Royal Society B
• Summer 2024: we welcome several visitors, Tomas Vinar, Brona Berjova, and Mattia Sgro.
• June 2024: our paper " AGO, a Framework for the Reconstruction of Ancestral Syntenies and Gene Orders" has been published in Comparative Genimics (Methods in Molecular Biology).
• May 2024: Our paper "A vector representation for phylogenetic trees" is available on arXiv
• May 2024: we welcome two summer interns, Pegah Aryadoost (SFU) and Ghofrane Fharat (ENSI, Tunisia).
• May 2024: Our paper "PlasEval: a framework for comparing and evaluating plasmid detection tools" is available on bioRxiv.
• January 2024: our paper "TKSM: Highly modular, user-customizable, and scalable transcriptomic sequencing long-read simulator" has been accepted in Bioinformatics.
• January 2024: Cedric starts a 3-year term as Chair of the SFU Department of Mathematics.