SKESASKESA is a de novo sequence read assembler for microbial genomes, utilizing De Bruijn graphs and conservative heuristics to achieve high-quality assemblies.Versions

v2.5.1 (default)

Tags: genome assemblyParameters

INPUT_FASTQ (file, multiple) required: Input FASTQ files containing sequencing reads.

vector_percent (float): Percentage of vector presence threshold.

kmer (int): K-mer length for assembly.

steps (int): Number of extension steps.

min_contig (int): Minimal contig length reported in output.

allow_snps (bool): Allow additional step for snp discovery.

Links

License: Public Domain

Cite as: Souvorov A, Agarwala R, Lipman DJ. SKESA: strategic k-mer extension for scrupulous assemblies. Genome Biol. 2018;19(1):153. doi:10.1186/s13059-018-1540-z

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