process_species_names

This function standardizes species names and fixes a number of 
common typos and mistakes that commonly occur due to OCR.

A Python based pipeline for extraction of species occurrence data through the usage of large language models. Includes validation tools designed to handle model hallucinations for a scientific, rigorous use of LLM. Currently supports usage of GPT with more planned, including local and non-proprietary models. For more details on the methodology used please consult the references listed under each function, such as Kent, A. et al. (1995) <doi:10.1002/asi.5090060209>, van Rijsbergen, C.J. (1979, ISBN:978-0408709293, Levenshtein, V.I. (1966) <https://nymity.ch/sybilhunting/pdf/Levenshtein1966a.pdf> and Klaus Krippendorff (2011) <https://repository.upenn.edu/handle/20.500.14332/2089>.

Vasco V. Branco

arete

Automated REtrieval from TExt

Vaughn Shirey

Thomas Merrien

Pedro Cardoso

process_species_names function

<dl><dt>species</dt>
<dd>character. String with the name of the species to be processed.</dd>
<dt>processing</dt>
<dd>character. One of <code>"trim"</code>, <code>"sp nov"</code>, <code>"hyphen broken"</code>, <code>"abbreviate"</code>, <code>"spacing"</code> and <code>"all"</code>. By default set to <code>"all"</code>, performing every edit.</dd>
<dt>enforce</dt>
<dd>boolean. Remove non-conforming entries before returning.</dd></dl>

Arguments

Process and fix species names — process_species_names

<dl>

<dt>species</dt>
<dd>character. String with the name of the species to be processed.</dd>


<dt>processing</dt>
<dd>character. One of <code>"trim"</code>, <code>"sp nov"</code>, <code>"hyphen broken"</code>, <code>"abbreviate"</code>, <code>"spacing"</code> and <code>"all"</code>. By default set to <code>"all"</code>, performing every edit.</dd>


<dt>enforce</dt>
<dd>boolean. Remove non-conforming entries before returning.</dd>

</dl>

process_species_names: Process and fix species names

Description

Usage

Value

Arguments

Examples