Inputs

Input can be either a string or a table, and queries can be either taxa or accessions as shown in NCBI datasets docs.

Strings

TaxonsAccessions

assembly_finder -i 1290,staphylococcus_aureus,562 -nb 1 -o taxons

Note

Taxons can be either taxids or taxon names

assembly_finder --accession -i GCF_003812505.1,GCF_000418345.1,GCF_000157115.2 \
-o accessions

Note

Accessions can be bioproject or genome accessions see ncbi-datasets docs

Tables

TaxonsAccessions

taxon	nb
1290	1
staphylococcus_aureus	1
562	1

Note

You can set the number of genomes per taxon in the table

GCF_003812505.1
GCF_000418345.1
GCF_000157115.2

Note

The accession table does not have a header