iiinova — where your digital self keeps evolving

Reposted by Gregg Thomas

Jake Berv @jakeberv.bsky.social · 22/06/2026

#Evol2026 I’m launching a new research group at UNC Charlotte in January 2027. Prospective students, postdocs, and collaborators are welcome to get in touch: jacob.berv@charlotte.edu More at jakeberv.com, lab website coming soon.

Announcement for a new Biodiversity Informatics Research Group at UNC Charlotte, launching January 2027. Dr. Jake Berv is launching a lab studying biodiversity across space and deep time, integrating phylogenomics, fossil and modern specimens, fieldwork, and comparative methods. A major near-term interest is developing and benchmarking human-guided AI research agents for rigorous, reproducible analyses in ecology and evolution. Prospective students, postdocs, and collaborators in macroevolution, computational biology and AI, natural history, and open science are welcome to get in touch at jacob.berv@charlotte.edu. More information: jakeberv.com. The graphic features McDowell Nature Preserve in Charlotte.

149551

Reposted by Gregg Thomas

Dan Schrider @samurscicop.bsky.social · 28/04/2026

Please circulate: I will have a postdoc opening soon, ideally with a start date sometime this summer or fall. If you're interested in empirical population genetics, computational methods development, and/or evolutionary modeling via simulation, don't hesitate to reach out. For more info on the lab:

12031

Reposted by Gregg Thomas

Mark Hibbins, Great Lakes Swashbuckler @rejectresubmit.bsky.social · 17/04/2026

I'm hiring a postdoc (start date flexible) and a PhD student (for Fall 2027) to work in any area of computational phylogenetics! More info here: mhibbins.github.io I will be attending both PEQG and Evolution in June, so please reach out if you want to chat at these meetings!

mhibbins.github.io

Hibbins Lab

04761

Reposted by Gregg Thomas

Chris Smith @chriscrsmith.bsky.social · 14/03/2026

I'm hiring a postdoc in population and evolutionary genetics at Indiana University Bloomington! Computational lab. Message me if interested, and can apply here: indiana.peopleadmin.com/postings/32547

indiana.peopleadmin.com

Postdoctoral Fellow, Biology

The department of Biology is a large, unified department with strong undergraduate degrees, nationally-ranked graduate programs, and world-class research spanning the breadth of biological questions a...

01117

Gregg Thomas @gwct.bio · 23/02/2026

Blizzard outside, so I'll post about my first foray into fully agentic AI coding. I picked something I'd been wanting to do for a while, but had no experience with prior: a VSCode extension to view phylogenies in the editor. The result is PhyloLens. marketplace.visualstudio.com/items?itemNa...

marketplace.visualstudio.com

PhyloLens - Visual Studio Marketplace

Extension for Visual Studio Code - View phylogenetic trees in VS Code (Newick, NEXUS, PhyloXML, NeXML).

200

Reposted by Gregg Thomas

Fábio K. Mendes @fabiology.bsky.social · 12/07/2025

📣 The Mendes Lab is recruiting PhD students in statistical phylogenetics! Interested, or know someone who might be? Details here 👉 tinyurl.com/542wyfb9 — please share!

02134

Gregg Thomas @gwct.bio · 05/06/2025

Recently I developed several Snakemake workflows for tasks related to Cactus and HAL files, including whole genome alignment and pangenome inference. The goal was to perform these tasks efficiently on SLURM-based (or possibly other) clusters. I hope they are useful! github.com/harvardinfor...

github.com

GitHub - harvardinformatics/cactus-snakemake: Snakemake workflows for performing whole genome alignment with Cactus efficiently on SLURM clusters

Snakemake workflows for performing whole genome alignment with Cactus efficiently on SLURM clusters - harvardinformatics/cactus-snakemake

152

Reposted by Gregg Thomas

Matthew Hahn @3rdreviewer.bsky.social · 10/02/2025

New paper led by @glom.bsky.social! "Unprecedented female female bias in the aye-aye, a highly unusual lemur from Madagascar" 1/ journals.plos.org/plosbiology/...

43121

Reposted by Gregg Thomas

James Pease @jamesbpease.bsky.social · 10/01/2025

The Pease Lab in the Dept of Evolution, Ecology, and Organismal Biology at The Ohio State University is looking for a Postdoc interested in genotype-phenotype-environment evolution in plant and animal genomes. Details at osu.wd1.myworkdayjobs.com/en-US/OSUCar... and more info at www.peaselab.org

Aronoff Lab at The Ohio State University

14239

Reposted by Gregg Thomas

Emily Moore @ecmoore.bsky.social · 09/01/2025

If you know anyone who might be interested in working as a technician before a PhD, I'm looking for someone to work with me to generate some amazing data to understand the genetics of behavior, sex differences, and reproduction in an evolutionary context. Bonus? Amazing and supportive department!

25465

Reposted by Gregg Thomas

Emily Kopania @ekopania.bsky.social · 07/01/2025

Our paper on the evolution of male reproduction in murine rodents was selected as the editor's choice article in the January issue of Evolution!

0195

Gregg Thomas @gwct.bio · 04/12/2024

A thorough look at what I think is an often overlooked problem in popgen and comparative genomics in general!

051

Gregg Thomas @gwct.bio · 14/11/2024

Great to work with @ekopania.bsky.social, @jeffreygood.bsky.social, and everyone else on this project! I was happy to be able to present Emily's cool figure showing dN/dS of genes in different tissues and different time-points at Evolution a couple years ago:

A color figure (3) from the paper linked in the quoted post. The top panel A shows a drawing of the male rodent reproductive tract with different tissues shaded different colors, from dark blue to red, indicating median dN/dS values for genes expressed in those tissues. Below are colored cells using the same color scale from five different stages of spermatogenesis. Panels B and C below are graphs with points on the x-axise corresponding to the four cell stages shown above, with the y-axis for panel B being the proportion of genes under positive selection for each time point and for panel C being the proportion of genes expressed during that stage that are testis-specific. The points in panel B hover around the genome-wide average shown with a dotted horizontal line, while the points in panel C increase steadily above the genome-wide average, peaking in stage 4 (spermatids).

062

Gregg Thomas @gwct.bio · 12/11/2024

I'd like to see the alignments... xkcd.com/3010

xkcd.com

Geometriphylogenetics

130

Reposted by Gregg Thomas

Joseph W. Brown @josephwb.bsky.social · 22/10/2024

For phun I made a "starter pack" for people involved in developing phylogenetic methods. If you feel you should not be involved, or feel I missed you (it is difficult!), please let me know. go.bsky.app/D7LsGUM 🧪

74027

Reposted by Gregg Thomas

Matthew Hahn @3rdreviewer.bsky.social · 18/10/2024

🚨🚨🚨Jobs at IU!🚨🚨🚨 Multiple positions in computational biology, broadly interpreted. Positions can be in multiple depts, including Biology, Informatics, and CS. Please apply--we want new colleagues! jobs.sciencecareers.org/job/664327/m...

jobs.sciencecareers.org

Multiple, Tenured/Tenure-Track Faculty Positions in Computing in Biology, Health, and Wellness - Bloomington, Indiana job with Indiana University Bloomington | 664327

Invite applications for multiple tenure /tenure-track positions at the Assistant, Associate, or Full Professor ranks

11128

Reposted by Gregg Thomas

Mark Hibbins, Great Lakes Swashbuckler @rejectresubmit.bsky.social · 02/10/2024

I'm recruiting students / postdocs to join my new lab at the University of Rochester for Fall 2025 onwards! If you're interested in phylogenetic comparative methods, genome evolution, and/or computational biology, please get in touch! More info: mhibbins.github.io

mhibbins.github.io

Hibbins Lab

04857

Reposted by Gregg Thomas

Rob Lanfear @roblanfear.bsky.social · 06/09/2024

For phylo nerds interested in concordance and discordance... Here's a tutorial that helps you calculate gene, site, and quartet concordance vectors for any branch on your tree. iqtree.org/doc/recipes/... (work with @3rdreviewer.bsky.social) #phylogenetics 🧪 #evolution

A table with the title "Concordance factors for branch ID 545". It shows a table with 4 columns (concordance and discordance factors) and 3 rows (gene, site, and quartet). Each cell contains a percentage representing the proportion of the genes, sites, or quartets which match a particular tree. Cells with higher numbers are coloured darker red.

A phylogeny showing six major clades of birds. Next to each is a table of concordance vectors.

05124

Reposted by Gregg Thomas

Nat Forsdick @natforsdick.bsky.social · 27/07/2024

Adam Freedman gives a great overview of the pros and cons of current genome annotation pipelines. If you have RNAseq data, use BRAKER or Stringtie, if you have a high quality closely related annotation, TOGA performs very well. #Evol2024

042

Reposted by Gregg Thomas

Matthew Hahn @3rdreviewer.bsky.social · 03/01/2024

New preprint with Rob Lanfear! "The meaning and measure of concordance factors in phylogenomics" ecoevorxiv.org/repository/v...

22214