Benchmarking genome assemblers for four bacterial models based on contiguity, correctness, and completeness.

ABSTRACT: De novo genome assembly allows for the genome reconstruction of an organism without using a reference sequence. Assembly results depend on various sequencing technologies that generate data with differing fidelity, read lengths, and coverage levels, as well as on performance of a wide variety of algorithms. These attributes generate a diversity of assemblies for each single genome, which collectively defines the pan-assembly. In this study, we aimed to benchmark pan-assemblies of the prokaryotic models Brucella henselae, Escherichia coli, Pseudomonas aeruginosa, and Xylella fastidiosa, using different attributes and their impact on metrics of the 3 C (contiguity, correctness, and completeness) criterion for selecting the best conditions for de novo genome assembly. Results showed that shor

SUBMITTER: Rojas-Miranda H 

PROVIDER: S-EPMC12669709 | biostudies-literature | 2025 Nov

REPOSITORIES: biostudies-literature