compbio-khmer-signatures

Compute pathogen genomic k-mer signatures by submitting a real DNA sequence of at least 200 nucleotides, a GenBank accession, and a validated biosafety level of BSL-2 or higher. The Skill generates a khmer-based signature along with unique genomic features and metadata.

A khmer-based k-mer signature is a computational representation of pathogen genome sequences used for rapid biosurveillance. You need it when generating searchable signatures for environmental samples to aid outbreak monitoring and response.

Yes, you can generate k-mer signatures for virulence plasmids, pathogenicity islands, and chromosomal markers. The workflow supports biosurveillance applications involving BSL-2 and BSL-3 organisms and captures these as unique genomic features.

You need a real pathogen DNA sequence of at least 200 nucleotides, a validated biosafety level of BSL-2 or higher, and a corresponding GenBank accession. These inputs yield a k-mer signature, biosafety level metadata, and unique genomic features.

No, k-mer signature generation requires an input DNA sequence of at least 200 nucleotides. You must also provide a GenBank accession and a validated biosafety level of BSL-2 or higher to process the pathogen genome.

Capture biosafety level and GenBank metadata by providing a validated BSL-2 or higher designation and a GenBank accession alongside your pathogen DNA sequence. The workflow outputs the signature, biosafety level, and unique genomic features together.