parse_taxonomy_table

(<code>character</code> of length 1)
The file path to the input file.

file_path

(named <code>integer</code> of length 1)
The index of the column with taxonomic information, named by the type of information.
A negative index is interpreted as the number of columns from the last.
The name of the column can have to following values:
 <dl>
      
      
      
 </dl>


taxon_col

(<code>character</code>) 
The type of the other columns no specified by <code>taxon_col</code>. Can be <code>"taxon_info"</code> or <code>"obs_info"</code>.

other_col_type

(<code>logical</code> of length 1)
If <code>TRUE</code>, the first row of the file is the column names.

header

(<code>character</code> of length 1)
The character(s) that separate each column in each row.
Can be a regular expression.

(<code>integer</code> of length 1)
The maximum number of lines to read from the file.

max_lines

(<code>character</code>) One or more characters that appear at the start of a line indicating that the line is a comment and not part of the data.

comment_prefix

Passed to <code><a rd-options="" href="/link/extract_taxonomy?package=metacoder&version=0.1.2" data-mini-rdoc="metacoder::extract_taxonomy">extract_taxonomy</a></code>.

A set of tools for parsing, manipulating, and graphing data classified by a hierarchy (e.g. a taxonomy).

Zachary Foster

metacoder

Tools for Parsing, Manipulating, and Graphing Hierarchical Data

parse_taxonomy_table function

Passed to <code><a rd-options='' href='extract_taxonomy'>extract_taxonomy</a></code>.

parse_taxonomy_table: Parse taxonomic data in a tsv/csv file

Description

Usage

Arguments

Value