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

doi:10.1101/2025.03.10.641994

Metadatos

Licencia de uso del documento

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]

Idioma

Document de travail - Pré-publication

Este ítem está publicado en

2025-03-13

Resumen en inglés

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.< Leer menos

Palabras clave en inglés

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

Proyecto ANR

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

Orígen

Importado de Hal

Centros de investigación

BioGeCo (Biodiversité Gènes & Communautés) - UMR 1202