snipe sketch

Create a k-mer sketch signature from sample reads or a genome reference.

snipe sketch [OPTIONS]

Options

Flag	Type	Required	Default	Description
-o, --output	text	yes	—	Output signature path (canonically *.snipesig, Parquet-encoded).
--sample	text	no	—	Sample FASTA/FASTQ path(s) -> one signature (repeat for multiple files). Pass ’-’ to stream a single FASTA/FASTQ from stdin; ’-’ cannot be mixed with file paths.
--genome	text	no	—	Genome FASTA path -> one reference-with-coordinates signature. Accepts exactly one file.
--k1-size	integer	no	51	K1 size (prefix k-mer).
--k2-size	integer	no	53	K2 size (extended k-mer, must be >= k1_size).
--scale	integer range	no	10000	Scale factor for hash-space sampling.
--min-seq-length	integer	no	—	Minimum sequence length to process.
--max-sequences	integer	no	—	Maximum number of sequences (0 = unlimited).
--keep-acgt	flag	no	off	Keep k-mer sequences in the output.
--input-format	fastx | sra	no	—	Input format (auto-detected by default).
--name	text	no	—	Custom signature name (the signature has no stored name unless this is set).