iiinova — where your digital self keeps evolving

Reposted by Ryan Doughty

bioRxiv Bioinfo @biorxiv-bioinfo.bsky.social · 22/05/2026

Min-frame transformation enables more sensitive viral genome alignment www.biorxiv.org/content/10.64898/20…

Ryan Doughty @ryandoughty.bsky.social · 22/05/2026

Happy to share a new preprint on work from the past few months: In this work, we define the Min-Frame Transformation (MFT), which allows us to transform nucleotide sequences such that mutations between sets of sequences can be effectively masked. www.biorxiv.org/content/10.6... 1/n

biorxiv.org

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Reposted by Ryan Doughty

Rob Patro @robp.bsky.social · 21/05/2026

Is anyone attending #RECOMB2026 with a talk in the Sequencing 2 session who would be willing to switch slots with a talk in Sequencing 1 a day earlier? We’d be very grateful. Please reach out if you might be willing to do this!

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Reposted by Ryan Doughty

Stephen Turner @stephenturner.us · 11/01/2026

I had the privilege of working on one of the tools studied here, SeqScreen. SeqScreen was part of this evaluation where every tool hit >95% sensitivity and >97% accuracy; disagreements were mostly isolated and tied to SOC definition differences.

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Ryan Doughty @ryandoughty.bsky.social · 08/12/2025

Some of my work from the first year of my PhD is out as a preprint, please check it out! Virus evolution is rapid and prolific both across and within individuals. However, a significant amount of variation remains hidden due to computational bottlenecks in read-alignment and variant calling 1/n

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medRxivpreprint @medrxivpreprint.bsky.social · 13/05/2025

A Comparison of Methods for the Optimal Recovery of the Human Fecal Virome www.medrxiv.org/content/10.1101/202…

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Reposted by Ryan Doughty

Sullivan Lab at OSU @sullivan-lab.bsky.social · 10/02/2025

Upcoming wastewater virome webinar from Dr. Mike Tisza, Feb. 12! Free for everyone. More: coms.osu.edu/events/early... #virus #virome #viromics #pathogen #sequencing #microbiome #microbe #bacteria #science #microbiology #webinar

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Reposted by Ryan Doughty

Mike Tisza @miketisza.bsky.social · 04/02/2025

We interrupt your regularly-scheduled chaos to bring you some cool microbiome science. 🦠 🖥️ 🧬 "Longitudinal phage–bacteria dynamics in the early life gut microbiome" now out in Nature Microbiology. We wanted a way to measure bacteria and phage in metagenomes 1/ www.nature.com/articles/s41...

nature.com

Longitudinal phage–bacteria dynamics in the early life gut microbiome - Nature Microbiology

Reanalysis of 12,262 longitudinal infant gut microbiome samples using the Marker-MAGu pipeline revealed phage–bacteria dynamics over the first year of life.

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Reposted by Ryan Doughty

Adam Phillippy @aphillippy.bsky.social · 27/01/2025

Congrats to Bryce Kille on absolutely smashing his PhD defense at Rice today with advisor @treangen.bsky.social ! Collaborating with Bryce over the past few years has been an absolute delight 👏🎉👏🎉

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