Claire Lemaitre

Abstract Summary: Metagenome assembly seeks to reconstruct the most high-quality genomes from sequencing data of microbial ecosystems. Despite technological advancements that facilitate assembly, such as Hi-Fi long reads, the process remains challenging in complex environmental samples consisting of hundreds to thousands of populations. Mapler is a metagenome assembly and evaluation pipeline with a focus on evaluating the quality of Hi-Fi long read metagenome assemblies.

Research Article EVOLUTION Carol Moraga https://orcid.org/0000-0002-7659-1287, Catarina Branco https://orcid.org/0000-0002-6669-2519, [...] , Quentin Rougemont https://orcid.org/0000-0003-2987-3801, Pavel Jedlička https://orcid.org/0000-0001-9324-5151, [...] , Eddy Mendoza-Galindo https://orcid.org/0000-0001-7991-6270, Paris Veltsos https://orcid.org/0000-0002-8872-6281, Melissa Hanique https://orcid.org/0009-0006-0585-9051, Ricardo C.

Abstract Pangenome variation graphs are an increasingly used tool to perform genome analysis, aiming to replace a linear reference in a wide variety of genomic analyses. The construction of a variation graph from a collection of chromosome-size genome sequences is a difficult task that is generally addressed using a number of heuristics. The question that arises is to what extent the construction method influences the resulting graph, and the characterization of variability.