CulebrONT: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes
Julie Orjuela, Aurore Comte, Sébastien Ravel, Florian Charriat, Tram Vi, François Sabot, Sébastien Cunnac
Abstract
Using long reads provides higher contiguity and better genome assemblies. However, producing such high quality sequences from raw reads requires to chain a growing set of tools, and determining the best workflow is a complex task.
Topics & Concepts
Pipeline (software)WorkflowGenomeSequence assemblyContiguityTask (project management)Computer scienceComputational biologySet (abstract data type)BiologyProgramming languageGeneticsGeneDatabaseEngineeringTranscriptomeOperating systemGene expressionSystems engineeringGenomics and Phylogenetic StudiesRNA and protein synthesis mechanismsBacteriophages and microbial interactions