Attempts to save taxonomic and sequence information of a taxmap object in the
UNITE general FASTA format. If the taxmap object was created using
parse_unite_general
, then it should be able to replicate the format
exactly with the default settings.
write_unite_general(
obj,
file,
tax_names = obj$get_data("taxon_names")[[1]],
ranks = obj$get_data("unite_rank")[[1]],
sequences = obj$get_data("unite_seq")[[1]],
seq_name = obj$get_data("organism")[[1]],
ids = obj$get_data("unite_id")[[1]],
gb_acc = obj$get_data("acc_num")[[1]],
type = obj$get_data("unite_type")[[1]]
)
A taxmap object
(character
of length 1) The file path to save the
sequence fasta file. This is optional.
(character
named by taxon ids) The names of taxa
(character
named by taxon ids) The ranks of taxa
(character
named by taxon ids) Sequences
(character
named by taxon ids) Name of sequences.
Usually a taxon name.
(character
named by taxon ids) UNITE sequence ids
(character
named by taxon ids) Genbank accession
numbers
(character
named by taxon ids) What type of sequence it
is. Usually "rep" or "ref".
The output file has a format like:
>Glomeromycota_sp|KJ484724|SH523877.07FU|reps|k__Fungi;p__Glomeromycota;c__unid...
ATAATTTGCCGAACCTAGCGTTAGCGCGAGGTTCTGCGATCAACACTTATATTTAAAACCCAACTCTTAAATTTTGTAT...
...
Other writers:
make_dada2_asv_table()
,
make_dada2_tax_table()
,
write_greengenes()
,
write_mothur_taxonomy()
,
write_rdp()
,
write_silva_fasta()