MAURICE, Nicolas; LEMAITRE, Claire; FRIOUX, Clémence; VICEDOMINI, Riccardo

doi:10.1101/2025.03.10.641994

Métadonnées

Licence d’utilisation du document

MAURICE, Nicolas
Scalable, Optimized and Parallel Algorithms for Genomics [GenScale]
Pleiade, from patterns to models in computational biodiversity and biotechnology [PLEIADE]

LEMAITRE, Claire
Scalable, Optimized and Parallel Algorithms for Genomics [GenScale]

FRIOUX, Clémence
Pleiade, from patterns to models in computational biodiversity and biotechnology [PLEIADE]

Langue

Document de travail - Pré-publication

Ce document a été publié dans

2025-03-13

Résumé en anglais

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. It incorporates several state-of-the-art metrics, as well as novel metrics assessing the diversity that remains uncaptured by the assembly process. Mapler facilitates the comparison of assembly strategies and helps identify methodological bottlenecks that hinder genome reconstruction.< Réduire

Mots clés en anglais

Bioinformatics

Metagenomics

Microbiome

Sequence alignment

Sequance analysis

Software

Metagenome assembly

HiFi long reads

Complex microbial ecosystems

Benchmarking

Evaluation

DOI

http://dx.doi.org/10.1101/2025.03.10.641994

Project ANR

Computationel models of crop plant microbial biodiversity - ANR-22-PEAE-0011

Origine

Importé de hal

Unités de recherche

BioGeCo (Biodiversité Gènes & Communautés) - UMR 1202