@@ -211,6 +211,7 @@ Give at least one of ``-T``, ``-t`` or ``-g`` parameters (one of them is enough)
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@@ -211,6 +211,7 @@ Give at least one of ``-T``, ``-t`` or ``-g`` parameters (one of them is enough)
- ``-g <NCBI species>``: the name of the species, as written by the NCBI. Give name between quotes.
- ``-g <NCBI species>``: the name of the species, as written by the NCBI. Give name between quotes.
- ``-T <NCBI species taxid>``: the taxid provided by the NCBI for the species you want to download
- ``-T <NCBI species taxid>``: the taxid provided by the NCBI for the species you want to download
- ``-t <NCBI taxid>``: the taxid provided by the NCBI for the subspecies or specific strain you want to download
- ``-t <NCBI taxid>``: the taxid provided by the NCBI for the subspecies or specific strain you want to download
- ``-S <NCBI_strain>``: specific strain name you want to download. A comma-separated list of strain names is possible, as well as a file with 1 line per strain.
If you want to download all genomes in genbank, and not only the ones in refseq, use option ``-s genbank`` (default is ``-s refseq``).
If you want to download all genomes in genbank, and not only the ones in refseq, use option ``-s genbank`` (default is ``-s refseq``).
