genbank_ex_data

0th

Percentile

Fungal ITS Genbank refseq

A dataset containing information for 299 sequences obtained from NCBI using the following query:

Keywords
datasets
Usage
genbank_ex_data
Details

(18s[All Fields] AND 28s[All Fields]) AND "basidiomycetes"[porgn] AND (refseq[filter] AND ("700"[SLEN] : "800"[SLEN]))

Format

An object of type taxmap

Aliases
  • genbank_ex_data
Examples
# NOT RUN {
file_path <- system.file("extdata", "ncbi_basidiomycetes.fasta", package = "metacoder")
sequences <- ape::read.FASTA(file_path)
genbank_ex_data <- extract_taxonomy(sequences,
                                    regex = "^.*\\|(.*)\\|.*\\|(.*)\\|(.*)$",
                                    key = c(gi_no = "obs_info", "obs_id", desc = "obs_info"),
                                    database = "ncbi")
# }
Documentation reproduced from package metacoder, version 0.1.3, License: GPL-2 | GPL-3

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