An Efficient Approach to Merging Paired-End Reads and Incorporation of Uncertainties. - Tomás Flouri; Jiajie Zhang; Lucas Czech; Kassian Kobert; Alexandros Stamatakis (Algorithms for Next-Generation Sequencing Data, 2017)

Methods for automatic reference trees and multilevel phylogenetic placement. - Lucas Czech; Pierre Barbera; Alexandros Stamatakis (Bioinform., 2019)

Genesis and Gappa: processing, analyzing and visualizing phylogenetic (placement) data. - Lucas Czech; Pierre Barbera; Alexandros Stamatakis (Bioinform., 2020)

Novel Methods for Analyzing and Visualizing Phylogenetic Placements - Lucas Czech (2020)

Swarm v3: towards tera-scale amplicon clustering. - Frédéric Mahé; Lucas Czech; Alexandros Stamatakis; Christopher Quince; Colomban de Vargas; Micah Dunthorn; Torbjørn Rognes (Bioinform., 2021)

Metagenomic Analysis Using Phylogenetic Placement - A Review of the First Decade. - Lucas Czech; Alexandros Stamatakis; Micah Dunthorn; Pierre Barbera (Frontiers Bioinform., 2022)

grenepipe: a flexible, scalable and reproducible pipeline to automate variant calling from sequence reads. - Lucas Czech; Moises Exposito-Alonso (Bioinform., 2022)