The 2019 Workshop on Phylogenomics will be held in Český Krumlov, Czech Republic, from 20 January – 2 February. This will be the second version of the Workshop on Phylogenomics, which extends on topics developed in both the Workshop on Molecular Evolution and the Workshop on Genomics placing them in a phylogenomic framework.
This workshop brings together an international collection of faculty members and Workshop participants to study and discuss current ideas and techniques for exploring phylogenomics. 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 workflows. The workshop will cover main aspects of phylogenomics: the reconstruction of species trees from large-scale genomics data. In addition, we will explore the use of phylogenomic data to 1) study species divergence and trait evolution patterns, 2) reconstruct and analyze genome-wide collections of species trees to detect orthology and paralogy, and 3) study genome dynamics along species trees.
A majority of the schedule is dedicated to hands-on learning activities designed by faculty and the workshop team. This interactive experience provides Workshop participants with the practical experience required to meet the challenges presented by modern evolutionary sciences.
The Workshop registration fee is $1,800. This amount does not cover travel, lodging or boarding. Many important details about this and other topics can be read on our FAQ page and a map of important locations: Workshop Guide.
Detailed information about housing and discounted rates can be viewed here (updated guide for 2019 forthcoming).
A full schedule can be viewed below. Modifications and additions to the schedule may be made at any time prior to the beginning of the Workshop; however, the overall content and structure will remain largely the same.
The Workshop on Phylogenomics is organized by:
Toni Gabaldón, Center for Genomic Regulation
Scott Handley, Washington University
Anna Karnkowska, University of Warsaw
Antonis Rokas, Vanderbilt University
Week 1: 20-26 January, 2019
|20 Jan||6p – 10p||Everyone||Reception||Hotel Zlatý Anděl|
|21 Jan||9a – 12p||Scott Handley & Toni Gabaldón||Introduction and Orientation||Theater|
|2p – 5p||Workshop Team||Lab Introduction||House of Prelate|
|7p – 10p||Everyone||Scientific Speed Networking||TBD|
|22 Jan||9a – 12p||Antonis Rokas||Introduction to Phylogenomics||Theater|
|2p – 5p||Toni Gabaldón||Introduction to Phylogenetics, and Orthology and Paralogy||Theater|
|7p – 10p||Toni Gabaldón||Orthology and Paralogy Prediction lab||House of Prelate|
|23 Jan||9a – 12p||Workshop Team||Strategies for Building Data Matrices||House of Prelate|
|2p – 5p||Workshop Team||Alignment and Alignment Trimming||House of Prelate|
|7p – 10p||Workshop Team||Alignment and Concatentation Laboratory||House of Prelate|
|24 Jan||9a – 12p||Xiaofan Zhou||Introduction to Methods and Software for Phylogenomics||Theater|
|2p – 5p||Alexey Kozlov||RAxML Introduction and Laboratory||House of Prelate|
|7p – 10p||Stephen Crotty||IQtree Introduction and Tutorial||House of Prelate|
|25 Jan||9a – 12p||Celine Scornavaca||Non-Vertical Evolution and Phylogenetic Networks||Theater|
|2p – 5p||Celine Scornavaca||Networks Lab||House of Prelate|
|7p – 10p||TBD||Phylobayes Intro and Practical||House of Prelate|
|26 Jan||9a – 12p||Laura Kubatko||Coalescent Methods||Theater|
|2p – 5p||Laura Kubatko||Coalescent Methods Lab||House of Prelate|
|6p – 10p||Everyone||Workshop Social Event||TBD|
Week 2: 29 January – 4 February, 2019
|27 Jan||All Day||Everyone||Free Day||Your choice!|
|28 Jan||9a – 12p||Tracy Heath||Molecular Clocks and Dating Analysis||Town Theater|
|2p – 5p||Mario dos Reis||Bayesian Phylogenetic Analysis||House of Prelate|
|7p – 10p||Tracy Heath & Mario dos Reis||Dating Analysis Lab II||House of Prelate|
|29 Jan||9a – 12p||Laszlo Garamszegi||Trait evolution and ancestral state reconstruction||Town Theater|
|2p – 5p||Laszlo Garamszegi||Trait evolution and ancestral state reconstruction||Town Theater|
|7p – 10p||Everyone||Open Lab||House of Prelate|
|30 Jan||9a – 12p||Jason Stajich||Evolutionary Genomics||Town Theater|
|2p – 5p||Jason Stajich||Evolutionary Genomics Practical||House of Prelate|
|7p – 10p||Everyone||Open Lab||House of Prelate|
|31 Jan||9a – 12p||TBD||TBD||Town Theater|
|2p – 5p||TBD||Tree of Life||Town Theater|
|7p – 10p||TBD||Open Lab||House of Prelate|
|1 Feb||9a – 12p||Gergely Szöllősi||Horizontal Gene Transfer||Town Theater|
|2p – 5p||Gergely Szöllősi||Horizontal Gene Transfer Lab||House of Prelate|
|7p – 10p||Everyone||End of Workshop Party||You Decide!|
|2 Feb||All Day||Everyone||Departure|