rdp_ex_data: Example of RDP Archea data

Description Usage Format Source Examples

Description

A dataset containing information from 400 Archaea 16S sequences from the RDP reference database.

Usage

1

Format

An object of type taxmap

Source

http://rdp.cme.msu.edu/

Examples

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## Not run: 

file_path <- system.file("extdata", "rdp_current_Archaea_unaligned.fa", package = "metacoder")
sequences <- ape::read.FASTA(file_path)
rdp_ex_data <- extract_taxonomy(sequences,
                                regex = "^(.*?) (.*)\\tLineage=(.*)",
                                key = c(id = "obs_info", description = "obs_info", "class"),
                                class_regex = "(.+?);(.*?);",
                                class_key = c("name", "taxon_info"))

## End(Not run)


metacoder documentation built on May 23, 2017, 9:10 a.m.
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