metacoder (version 0.1.3)

unite_ex_data_2: Example of UNITE fungal ITS data

Description

A dataset containing information from 500 sequences from the UNITE reference database.

Usage

unite_ex_data_2

Format

An object of type taxmap

Examples

# NOT RUN {
file_path <- system.file("extdata", "unite_general_release.fasta", package = "metacoder")
sequences <- ape::read.FASTA(file_path)
unite_ex_data_2 <- extract_taxonomy(sequences,
                                    regex = "^(.*)\\|(.*)\\|(.*)\\|.*\\|(.*)$",
                                    key = c(seq_name = "obs_info", seq_id = "obs_info",
                                            other_id = "obs_info", "class"),
                                    class_regex = "^(.*)__(.*)$",
                                    class_key = c(unite_rank = "taxon_info", "name"),
                                    class_sep = ";",
                                    database = "ncbi")
# }
# NOT RUN {
# }

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