its1_ex_data: Example of ITS1 fungal data

Description Usage Format Examples

Description

A dataset containing information from 170 Chytridiomycota ITS sequences from the ITS1 reference database.

Usage

1

Format

An object of type taxmap

Examples

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## Not run: 

file_path <- system.file("extdata", "its1_chytridiomycota_hmm.fasta", package = "metacoder")
sequences <- ape::read.FASTA(file_path)
its1_ex_data <- extract_taxonomy(sequences,
                                 regex = "^(.*)\\|(.*)\\|tax_id:(.*)\\|(.*)$",
                                 key = c("obs_id", taxon_name = "taxon_info",
                                         "taxon_id", description = "obs_info"),
                                 database = "ncbi")

## End(Not run)

metacoder documentation built on May 30, 2017, 3:11 a.m.