selectGenomesForCrossSpeciesStudy: Select genomes for cross-species studies.

In kmeRtone: Multi-Purpose and Flexible k-Meric Enrichment Analysis Software

Select genomes for cross-species studies.

Description

The following filters are applied:

1. assembly_level: "Complete Genome" or "Chromosome"

2. genome_rep: "Full"

3. Unique species_taxid (single representative species)

4. refseq_category of "reference genome" is prioritised over "representative genome"

Usage

selectGenomesForCrossSpeciesStudy(organism.group = "bacteria", db = "refseq")

Arguments

organism.group	Species group: archaea, bacteria, fungi, invertebrate, plant, protozoa, vertebrate_mammalian, vertebrate_other, or viral.
db	Database record to use: refseq or genbank

Value

NCBI assembly summary with added column organism.group.

kmeRtone documentation built on Sept. 11, 2024, 9:12 p.m.