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write_mothur_cons_taxonomy

Source: R/write_mothur_cons_taxonomy.R
write_mothur_cons_taxonomy.Rd

Write a mothur formatted cons_taxonomy file

Usage

write_mothur_cons_taxonomy(data, file_root = NULL)

Arguments

data

A `strollur` object

file_root

a string containing the root name of the output file. Default = 'dataset_name'. Resulting in output files 'dataset_name'.bin_type'.cons.taxonomy.

Value

vector containing the names of the files created

Examples


miseq <- miseq_sop_example()
#> Added 2425 sequences.
#> Assigned 2425 sequence abundances.
#> Assigned 2425 sequence taxonomies.
#> Assigned 531 otu bins.
#> Assigned 2425 asv bins.
#> Assigned 63 phylotype bins.
#> Assigned 19 samples to treatments.
#> Assigned 531 otu bin taxonomies.
#> Assigned 531 otu bin representative sequences.
#> Added metadata.
#> Added 2 resource references.
#> Added a contigs_report.
write_mothur_cons_taxonomy(miseq, tempfile())
#> [1] "/tmp/Rtmp1sax1K/file1bf9a3f5fe9.otu.cons.taxonomy"      
#> [2] "/tmp/Rtmp1sax1K/file1bf9a3f5fe9.asv.cons.taxonomy"      
#> [3] "/tmp/Rtmp1sax1K/file1bf9a3f5fe9.phylotype.cons.taxonomy"