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Genome Setup

After successful initialization of SeqNado (Initialisation).

The seqnado genomes command allows you to manage genome configurations, including listing, editing, building, and generating configurations for fastq-screen.

Examples

List Available Genomes

seqnado genomes list

Build a New Genome

seqnado genomes build --fasta /path/to/genome.fasta --name my_genome --outdir /path/to/output

Generate a fastq-screen Configuration

seqnado genomes fastqscreen --screen /path/to/fastqscreen.conf --threads 16 --no-contaminants

For all subcommands, arguments, and flags, see the CLI reference: seqnado genomes.

Next Steps

Once you have configured your genomes, proceed to Configure a SeqNado run:

Configuration