The 2026 Workshop on Phylogenomics and Genome Evolution will run from the 25th of January through the 7th of February, 2026 in Český Krumlov, Czechia.
Applications for 2026
- Applications for the 2026 workshop are now open! Please click here to register.
What is the Workshop on Phylogenomics and Genome Evolution?
The 2026 Workshop on Phylogenomics and Genome Evolution is being held from the 25th of January through the 7th of February 3, in Český Krumlov, Czechia. This is its 4th edition. The workshop brings together an international collection of faculty members and Workshop participants to study and discuss current ideas and techniques for exploring phylogenomics, comparative genomics and genome evolution. The Workshop consists of a series of lectures, demonstrations and computer laboratories that cover theoretical and conceptual aspects of large-scale phylogenetics and phylogenomics, with a strong emphasis on data analysis. The Workshop places a strong focus on molecular phylogenetics performed at genome-wide scales (phylogenomics), and covers all aspects of phylogenomics and comparative genomics workflows, with emphasis on genome evolution and state-of-the-art AI methods applied to this field. Join our Newsletter (bottom of this page) to get announcements, or stay updated through Bluesky, LinkedIn, and Facebook. The Workshop registration fee is $1,950. We provide approximately 90 hours of teaching during the two week workshop. Our price is therefore approximately $22 an hour. Note that this amount does not cover travel, lodging or boarding. Many important details regarding fees and other information can be read on our FAQ page. The Workshop on Phylogenomics and Genome Evolution 2026 is organised by:- Rosa Fernández, Institute of Evolutionary Biology (CSIC-UPF) (Rosa’s lab homepage)
- Erin Molloy, University of Maryland (Erin’s lab homepage)
- Jacob Steenwyk, University of California Berkeley (Jacob’s homepage)
- Scott Handley, Evomics Director. Washington University, St. Louis, USA
Schedule
Our schedule is currently being updated. Please check back our previous workshops for an idea of the schedule., e.g. 2024 schedule can be found hereWeek 1 : 25-January through 1-February, 2026
| Date | Day | Time | Presenter | Topic | LOCATION |
|---|---|---|---|---|---|
| 25th Jan | Sunday | 18 – 22 | Everyone | Reception Dinner | – |
| 26th Jan | Monday | 09 – 12 | Rosa Fernández | Introduction and Orientation Town Services | TBD |
| Monday | 14 – 17 | Workshop Team | Lab: Tree Visualization & Tree Challenge | TBD | |
| Monday | 19.30 – 22 | Everyone | Social: Scientific Speed Networking | TBD | |
| 27th Jan | Tuesday | 09 – 12 | Rosa Fernández | Introduction to Phylogenomics | TBD |
| Tuesday | 14 – 17 | Workshop Team | Lab: Genome assembly and annotation | TBD | |
| Tuesday | 19 – 22 | TBA | Topic Lecture: phylogenomics/genome evolution | TBD | |
| 28th Jan | Wednesday | 09 – 12 | Jacob Steewyk | Lecture + hands-on: Concatenation and subsampling strategies | TBD |
| Wednesday | 14 – 17 | Workshop Team | Lab: Inferring gene family evolution along a species tree | TBD | |
| Wednesday | 19 – 22 | Tracy Heath | Lecture: Theoretical Introduction to Phylogenetic Methods & Models of sequence evolution | TBD | |
| 29th Jan | Thursday | 09 – 12 | TBA | Lecture: Coalescence-based species tree inference | TBD |
| Thursday | 14 – 17 | TBA | Lab: Coalescence-based species tree inference | TBD | |
| Thursday | 19 – 22 | Claudia Solis-Lemus | Lecture: Phylogenetic networks / hybridization | TBD | |
| 30th Jan | Friday | 09 – 12 | Claudia Solis-Lemus | Lab: Lecture: Phylogenetic networks / hybridization | TBD |
| Friday | 14 – 17 | Bastien Boussau | Lecture: Genome-wide measures of selection | TBD | |
| Friday | 19 – 22 | Bastien Boussau | Lab: Genome-wide measures of selection | TBD | |
| 31st Jan | Saturday | 09 – 12 | Toni Gabaldón | Lab: Orthology prediction | TBD |
| Saturday | 14 – 17 | Toni Gabaldón & Workshop Team | Lab: Orthology prediction | TBD | |
| Saturday | 19 – late! | Everyone | Town Tour @ 19.00 Social Event: Mid-Workshop dinner @ 20.00 | TBD | |
| 1st Feb | Sunday | All Day | Everyone | Free Day | Up to you! |
Week 2 : 2-7 February, 2026
| Date | Day | Time | WHO | Topic | LOCATION |
|---|---|---|---|---|---|
| 2nd Feb | Monday | 09 – 12 | Antonis Rokas | Lecture: Detecting incongruence in phylogenomics | TBD |
| Monday | 14 – 17 | Antonis Rokas | Lab: Detecting incongruence in phylogenomics | TBD | |
| Monday | 19 – 22 | Nathan Clark | Lecture: Linking genotype-to-phenotype in a phylogenetic framework | TBD | |
| 3rd Feb | Tuesday | 09 – 12 | Nathan Clark | Lab: Evolutionary rate covaration and related methods | TBD |
| Tuesday | 14 – 17 | Kay Lucek | Lecture and hands-on: Genome structure in the context of phylogenomics | TBD | |
| Tuesday | 19 – 22 | TBA | Topic Lecture: phylogenomics/genome evolution | TBD | |
| 4th Feb | Wednesday | 09 – 12 | Tal Pupko | Lecture: Machine learning and AI in phylogenetics | TBD |
| Wednesday | 14 – 17 | Tal Pupko | Lab: Implementing machine learning and AI methods in phylogenetics | TBD | |
| Wednesday | 19 – 22 | Ana Rojas & Rosa Fernández | Lecture + hands on: Large language models and transformers in functional annotation and comparative genomics | TBD | |
| 5th Feb | Thursday | 09 – 12 | Frederik Ronquist | Lecture: Probabilistic programming language in phylogenetics | TBD |
| Thursday | 14 – 17 | Frederik Ronquist | Lab: Probabilistic programming language in phylogenetics | TBD | |
| Thursday | 19 – 22 | Workshop Team | Lab: Open Workshop | TBD | |
| 6th Feb | Friday | 09 – 12 | Anna Karnkowska | Lecture: The intersection of microbial ecology and phylogenetics | TBD |
| Friday | 14 – 17 | Everyone | Social Event: Round Table Discussions, T-shirts and certificates | TBD | |
| Friday | 19 – 22 | Everyone | Social Event: End of Workshop Party | TBD | |
| 7th Feb | Saturday | All Day | Everyone | Departure |