How to online sketch an SRA accession without downloading?

sourmash-bio / sourmash

Quickly search, compare, and analyze genomic and metagenomic data sets.

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Open mr-eyes opened 1 month ago

mr-eyes commented 1 month ago

This command will stream the fasta file (whether SE or PE) to sourmash for sketching.

fasterq-dump --fasta-unsorted ${sra_accession} --stdout | sourmash sketch dna - ....

ctb commented 1 month ago