Our People
A randomly ordered, ever-growing list of 65 anvi’o developers and contributors.
Jessica Pan
Computer scientist interested in computational methods to investigate microbial ecosystems and making those techniques more accessible to others.
Number of changes in anvi'o code: 309
Most changes in: anvio/docs/__init__.py
Latest commit: "fixed a typo" on 07 January 2021
Sebastian Cristian Treitli
Microbiologist and bioinformatician - interested in protists and symbiotic interactions between protists and bacteria.
Sebastian has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Alon Shaiber
Computational scientist previously studying microbial ecology, currently studying structural variation in cancer genomics, and what's next? Who knows?
Number of changes in anvi'o code: 892
Most changes in: anvio/workflows/metagenomics/Snakefile
Latest commit: "change Alon's bio" on 14 January 2022
Mateu Menendez-Serra
Computational ecologist integrating ancient environmental genomics, microbial ecology, and statistical modeling to reconstruct past ecosystems and study long-term ecosystem dynamics.
Mateu has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Benjamin Luke Coltman
Bioinformatician working on simplifying microbiome complexity
Number of changes in anvi'o code: 11
Most changes in: anvio/drivers/hmmer.py
Latest commit: "Fixes #2539 by adding a simple fix for backward compatibility" on 11 February 2026
Vini Salazar
Researcher, open-source developer and aspiring marine microbiologist.
Vini has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Isaac Fink
Computer scientist interested in enhancing the power and accessibility of computational strategies to study microbial life.
Number of changes in anvi'o code: 120
Most changes in: anvio/data/interactive/js/charts.js
Latest commit: "fix for manually colored genes" on 13 December 2022
Avril Hoyningen-Huene
I am a microbial ecologist delving into the dynamics of phytoplankton functional changes in response to saesonal environmental changes.
Number of changes in anvi'o code: 1
Most changes in: anvio/data/misc/PEOPLE/AVATARS/avrilhoyningen.jpg
Latest commit: "add avril and xixi to contributors.yaml" on 20 May 2026
Sarahi L. Garcia
Microbial ecologist studying interactions at different levels of microbial organization.
Number of changes in anvi'o code: 3
Most changes in: anvio/docs/programs/anvi-gen-pan-representative.md
Latest commit: "updated documentation for pan representative" on 21 May 2026
Elaina Graham
Elaina has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
A. Murat Eren (Meren)
Computer scientist and microbial ecologist interested in understanding mechanisms by which microbes interact with their surroundings, evolve, disperse, and respond to environmental change.
Number of changes in anvi'o code: 8165
Most changes in: anvio/dbops.py
Latest commit: "Very boring font stuff" on 27 August 2026
Özcan C. Esen
Computer engineer interested in developing tools for the visualization of complex data.
Number of changes in anvi'o code: 2088
Most changes in: anvio/data/interactive/js/main.js
Latest commit: "remove h5py dependency" on 07 January 2020
Isa Wilkie
Marine microbiologist specialising in bioinformatic analysis of microbial populations, with experience developing pipelines for metagenomics, structural annotation, and population-level variation.
Isa has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Jarrod J. Scott
Microbiologist interested in understanding how bacteria and archaea coalesce into complex communities and how they affect host biology, biogeochemical cycles, and ecosystem-level processes in marine and terrestrial systems.
Jarrod has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Andrea Watson
Microbiologist interested in combining wet lab and computational methods in a complementary way to answer fundamental questions.
Number of changes in anvi'o code: 10
Most changes in: anvio/inversions.py
Latest commit: "cont only if contig stretches long enough #1970" on 22 August 2022
Dylan Mankel
Geomicrobiologist studying the activity and distribution of life in extreme environments.
Number of changes in anvi'o code: 5
Most changes in: anvio/docs/artifacts/variability-profile-txt.md
Latest commit: "Update variability-profile-txt.md" on 17 February 2026
Blandine Trouche
Microbial ecologist studying the biogeography and adaptation of microbial life to the greatest ocean depths
Number of changes in anvi'o code: 8
Most changes in: anvio/summarizer.py
Latest commit: "Update doc" on 22 May 2026
Matthew Lawrence Klein
Software developer interested in the role of technology in supporting a more equitable future on planet earth.
Number of changes in anvi'o code: 221
Most changes in: anvio/data/interactive/js/main.js
Latest commit: "better cotextual accordion show" on 14 April 2022
Mike Lee
Bioinformatician exploring microbial ecology and evolution in a wide range of environments.
Number of changes in anvi'o code: 23
Most changes in: sandbox/anvi-script-genbank-to-external-gene-calls
Latest commit: "Update DEVELOPERS.yaml" on 21 May 2024
Igor S. Pessi
Microbiologist specialized in the study of polar microbial communities, with a focus on the use of molecular ecology methods such as metagenomics and metatranscriptomics.
Number of changes in anvi'o code: 3
Most changes in: anvio/cli/kofam_accessions_to_hmms_directory.py
Latest commit: "fixed __authors__" on 21 May 2026
Florian Trigodet
Microbiologist using advanced computational strategies to make sense of the microbial ecology of complex habitats.
Number of changes in anvi'o code: 499
Most changes in: anvio/profiler.py
Latest commit: "rename the sra_download FASTQ output directory" on 12 August 2026
Metehan Sever
Number of changes in anvi'o code: 534
Most changes in: anvio/data/interactive/index.html
Latest commit: "Add mode" on 10 March 2025
Eeva Eronen-Rasimus
Microbial ecologist interested in how bacteria survive in ice, their coupling with sea-ice algae and ultimately, their contribution to carbon cycling in the oceans and the consequences of diminishing sea ice for bacteria mediated processes.
Eeva has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Patrick J. H. Bradley
Bioinformatician interested in Metagenomics, Statistical Modeling, Microbial Evolution, Functional Genomics and Metabolism
Patrick has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Georges Kanaan (Gio)
Oceanographer & Astrobiologist. Computer scientist. Studying sea-ice bacteria.
Number of changes in anvi'o code: 38
Most changes in: anvio/cogs.py
Latest commit: "Small bug fix in kaiju parser assuming 20 phylums" on 19 February 2025
Oleg Vlasovets
Data Scientist studying bacteria in human gut.
Number of changes in anvi'o code: 3
Most changes in: anvio/data/misc/PEOPLE/DEVELOPERS.yaml
Latest commit: "fix the typo" on 15 March 2024
C. Titus Brown
Bioinformatics software developer and microbiome enthusiast.
Number of changes in anvi'o code: 6
Most changes in: anvio/data/misc/PEOPLE/DEVELOPERS.yaml
Latest commit: "fix typo" on 27 July 2023
Srinidhi Varadharajan
Number of changes in anvi'o code: 4
Most changes in: sandbox/anvi-script-variability-to-vcf
Latest commit: "Ordering sample IDs" on 06 December 2018
Sarah Teichman
Biostatistician interested in differential abundance methodology and statistical education
Number of changes in anvi'o code: 1
Most changes in: anvio/data/misc/PEOPLE/AVATARS/MariaAVC.png
Latest commit: "add maria valdez cabrera and sarah teichman to contributors, associated with statdivlab tutorials" on 05 December 2025
Ryan Moore
Number of changes in anvi'o code: 49
Most changes in: sandbox/anvi-script-visualize-split-coverages
Latest commit: "Add tests for xlim bug (#1481, #1482)" on 06 August 2020
Antti Karkman
Computational microbiologist interested in antibiotic resistance in the environment
Number of changes in anvi'o code: 3
Most changes in: anvio/data/misc/PEOPLE/CONTRIBUTORS.yaml
Latest commit: "new pic and profile" on 20 May 2026
Matthew Schechter
Microbiologist interested in combining comparative genomics and environmental metagenomics to identify genetic determinants of fitness in microbial populations in the human gut and ocean microbiome.
Number of changes in anvi'o code: 749
Most changes in: anvio/workflows/ecophylo/Snakefile
Latest commit: "fix" on 31 July 2025
Dan Utter
Microbial ecologist interested in the evolution and maintenance of diversity in complex natural communities, mostly using bioinformatics
Number of changes in anvi'o code: 4
Most changes in: anvio/data/misc/PEOPLE/AVATARS/bio-dutter.jpg
Latest commit: "add dutter to contributors" on 07 June 2022
Daniel Blankenberg
Number of changes in anvi'o code: 8
Most changes in: anvio/__init__.py
Latest commit: "Fix for LinkMers.list_contigs(). Since we require all BAMs to have the same contigs, we'll just use the values from the first BAM file." on 14 March 2019
Chiara Vanni
Bioinformatician interested in making sense of the functional unknowns in meta(genomes). Recently experimenting with ancient metagenomics.
Number of changes in anvi'o code: 1
Most changes in: anvio/data/misc/PEOPLE/CONTRIBUTORS.yaml
Latest commit: "update contributor info for Chiara Vanni" on 20 May 2026
Robert Murphy
Microbiologist and bioinformatician - intrested in microbial communites present in symbiosis as a source for novel secondary metabolites
Robert has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Yunjeong So
Microbiome researcher specialising in the functional analysis of modern and ancient microbial communities, using computational approaches to study microbial functions relevant to human health and the environment
Yunjeong has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Amy D. Willis
Statistician and data scientist developing methods for the analysis of biodiversity, with a particular focus on the microbiome.
Number of changes in anvi'o code: 5
Most changes in: sandbox/anvi-script-run-functional-enrichment-stats
Latest commit: "address issue1828 with new lambda catches" on 10 November 2021
Antonio Fernandez-Guerra
Bioinformatician interested in development and application of new methodologies to analyze modern and ancient (meta)genomic data.
Antonio has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Iva Veseli
Computer scientist and biologist who leverages computational methods to study microbial metabolism in environmental metagenomes.
Number of changes in anvi'o code: 2643
Most changes in: anvio/kegg.py
Latest commit: "documentation updates" on 16 July 2026
Sarah Tucker
I am a marine microbiologist interested in the genomic, metabolic, and physiological diversity of microorganisms and how this diversity impacts ecological interactions and ocean processes.
Number of changes in anvi'o code: 11
Most changes in: anvio/tables/contigclassification.py
Latest commit: "fix end of file" on 21 May 2026
Luigi Gallucci
Microbial ecologist exploring deep-sea environments to study microbial evolution and the dispersion patterns connecting hydrothermal vents with the open ocean.
Luigi has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Tom O. Delmont
Microbial ecologist who seeks to understand small and large-scale ecological patterns in the microbial world.
Tom has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Xabier Vázquez-Campos
Environmental microbiologist and bioinformatician - interested in all things 'omics, extremophiles, taxonomy and systematics, evolution...
Number of changes in anvi'o code: 9
Most changes in: anvio/clustering.py
Latest commit: "remove dup hamming" on 06 January 2026
María Alejandra Valdez Cabrera
Mathematical statistician developing methods for complex data structures arising in health and biological sciences
María has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Alexander Henoch
I am a biologist-turned-computer scientist interested in understanding the influence of the environmental change on the genetic composition of microbial populations.
Number of changes in anvi'o code: 399
Most changes in: anvio/panops.py
Latest commit: "slightly change defaults" on 22 July 2026
Samuel Miller
Computational and molecular microbiologist studying how microbes function in their environments through tRNA-sequencing, proteomics, and metagenomics.
Number of changes in anvi'o code: 2396
Most changes in: anvio/biochemistry/reactionnetwork.py
Latest commit: "conform the KEGG mapping component tests to the other component tests" on 19 August 2026
Nick Youngblut
Microbiologist studying methanogens and host-microbiome coevolution
Number of changes in anvi'o code: 6
Most changes in: .github/workflows/ci.yml
Latest commit: "added avatar" on 10 April 2022
Quentin Clayssen
Microbiologist and bioinformatician interested in metagenomics.
Number of changes in anvi'o code: 89
Most changes in: anvio/taxoestimation.py
Latest commit: "add some modifications lost during merging" on 16 September 2019
Bastien Camillo
PhD Student in Multi-Species Comparative Genomics on Diatoms, also interested in Exobiology & Synthetic Biology
Bastien has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Joseph Nesme
Microbial ecologist studying plasmid diversity in the environment
Number of changes in anvi'o code: 4
Most changes in: anvio/workflows/pangenomics/Snakefile
Latest commit: "Add support for --I-know-this-is-not-a-good-idea flag in pangenomics workflow" on 27 January 2026
Mahmoud Yousef
Computer scientist and medical student interested in exploring the intersection of bioinformatics and medicine, and how bioinformatic techniques can be used to advance the quality of medicine.
Number of changes in anvi'o code: 39
Most changes in: anvio/utils.py
Latest commit: "We can safely remove this now" on 06 February 2020
Kathryn Lambert-Slosarska (Katy)
I am a marine (micro)biologist utilising computational approaches to understand the dynamism and impact of diversity-generating retroelements in microbial lifestyles within changing marine ecosystems.
Number of changes in anvi'o code: 52
Most changes in: anvio/workflows/metagenomics/__init__.py
Latest commit: "update workflow contract tests to include QC module snakefiles" on 22 May 2026
Moritz Buck
Number of changes in anvi'o code: 3
Most changes in: anvio/drivers/metabat2.py
Latest commit: "Fixed metbat2 parser" on 21 June 2025
Evan Kiefl
Computational biologist and software developer. For my PhD I studied how selective pressures shape the evolution of proteins in naturally occurring microbial populations.
Number of changes in anvi'o code: 1746
Most changes in: anvio/variabilityops.py
Latest commit: "Update DEVELOPERS.yaml" on 06 December 2023
Guillermo Rangel-Pineros
I am a microbiologist and bioinformatician interested in the development of computational workflows for the analysis of ancient microbial DNA
Number of changes in anvi'o code: 1
Most changes in: anvio/data/misc/PEOPLE/AVATARS/anvio-yunjeong.png
Latest commit: "added contributors details Guillermo, Mateu, Yunjeong" on 20 May 2026
Simon Roux
Viral ecologist and bioinformatician at the DOE JGI - interested in everything phage, 'omics, microbial and viral ecology and evolution, virus-host interactions, etc
Simon has not yet contributed to the codebase, but they are recognized for less tangible but equally valuable contributions, such as providing input to solve technical issues or lending their expertise to create new workflows in anvi'o.
Xi Chen (Xixi)
I am a bioinformatician and microbial ecologist. I enjoy tailoring computational methods to explore the diversity and dynamics of microbes. My current focus is on those that live in the ocean.
Number of changes in anvi'o code: 5
Most changes in: anvio/docs/programs/anvi-split.md
Latest commit: "Update anvi-split docs to reflect contig-only split mode. See issue 2605." on 20 May 2026
Jessika Fuessel
Biogeochemist and microbiologist intereted in understanding the production and fate of microbial metabolites within the context of changing environmental conditions using a multi-omics.
Number of changes in anvi'o code: 8
Most changes in: anvio/__init__.py
Latest commit: "Add per-population copy number (PPCN) normalization to anvi-script-gen-function-matrix-across-genomes" on 12 July 2026
Ahmed Belfaqih
Microbiology master's student with a growing focus on bioinformatics
Number of changes in anvi'o code: 17
Most changes in: anvio/panrep.py
Latest commit: "added logging and simplified sanity_check" on 25 May 2026
Daan R. Speth
Microbiologist and bioinformatician interested in understanding the metabolic and phylogenetic diversity of microorganisms through genomics and wet lab analyses
Number of changes in anvi'o code: 4
Most changes in: anvio/data/misc/PEOPLE/AVATARS/bio-daan.jpg
Latest commit: "updated the GlobDB functions documentation markdown file" on 22 May 2026
Emily Fogarty
Microbiologist developing computational and wet lab strategies to study horizontal gene transfer in the human gut microbiome.
Number of changes in anvi'o code: 4
Most changes in: anvio/utils.py
Latest commit: "Added quince-mode flag" on 12 May 2020
Hilary Morrison
A long and winding road to microbial ecology
Number of changes in anvi'o code: 2
Most changes in: anvio/data/misc/PEOPLE/CONTRIBUTORS.yaml
Latest commit: "Update CONTRIBUTORS.yaml" on 08 July 2022
Andrea Telatin
Head of Bioinformatics at the Quadram Institute Bioscience, Norwich, UK. Interested in metagenomics, microbial ecology, and open science.
Number of changes in anvi'o code: 13
Most changes in: sandbox/anvi-script-reformat-bam
Latest commit: "This was not using the class but relied on argparse.ArgumentParser" on 21 May 2026
Kathryn Kananen
Bioinformatician and computational biologist interested in population genetics, automation, and genomic architecture exploration
Number of changes in anvi'o code: 42
Most changes in: anvio/workflows/__init__.py
Latest commit: "Revert "Accept numpy integers in external gene calls"" on 30 May 2026