FAIRmaterials
Authors:
Jonathan E. Gordon\(^{1}\),
Alexander Harding Bradley\(^{1}\),
Priyan Rajamohan\(^{1}\), Nathaniel
Hahn\(^{1}\), Kiefer Lin\(^{1}\),
Arafath Nihar\(^{1}\), Hayden
Cadwell\(^{1}\), Jiana Kambo\(^{1}\), Jayvic Jimenez\(^{1}\), Kristen J. Hernandez\(^{1}\), Hein Htet Aung\(^{1}\),
Brian Giera\(^{2}\), Weiqi Yu\(^{1}\), Mohommad Redad Mehdi\(^{1}\), Finley Holt\(^{1}\), Quynh Tran\(^{1}\), Gabriel Ponon\(^{1}\),
Dan Savage\(^{3}\), Don Brown\(^{3}\), Jarod Kaltenbaugh\(^{4}\), Kush Havinal\(^{4}\), Nicholas Gray\(^{4}\), Max Ligget\(^{1}\),
Benjamin G. Pierce\(^{1}\), Raymond
Wieser\(^{1}\), Yangxin Fan\(^{1}\), Tommy Ciardi\(^{1}\), Olatunde J. Akanbi\(^{1}\), Hadiza Iawal\(^{1}\),
Will Oltjen\(^{1}\), Maliesha
Kalutotage\(^{1}\), Antony Lino\(^{1}\), Van Tran\(^{1}\), Mingjian Lu\(^{1}\), Xuanji Yu\(^{1}\),
Abhishek Daundkar\(^{1}\), Hope
Omodolor\(^{1}\), Mirra Rasmussen\(^{1}\), Sameera Nalin-Venkat\(^{1}\), Tian Wang\(^{1}\),
Rounak Chawla\(^{1}\), Liangyi
Huang\(^{1}\), Zelin Li\(^{1}\), Leean Jo\(^{1}\), Jeffrey M. Yarus\(^{1}\), Mengjie Li\(^{4}\),
Kristopher O. Davis\(^{4}\),
Yinghui Wu\(^{1}\), Pawan K.
Tripathi\(^{1}\), Laura S.
Bruckman\(^{1}\), Erika I.
Barcelos\(^{1}\),
Roger H. French\(^{1}\)
\(^{1}\) Materials Data Science for
Stockpile Stewardship Center of Excellence, Cleveland, OH 44106,
USA
\(^{2}\) Lawrence Livermore National
Laboratory, Livermore, CA 94551, USA
\(^{3}\) Los Alamos National
Laboratory, Los Alamos, NM 87545, USA
\(^{4}\) University of Central Florida,
Materials Science & Engineering, Orlando, FL 32816, USA
What is FAIRmaterials and what does it do?
‘FAIRmaterials’ is a bilingual package in R and Python that
translates several CSV files from the template (described below) with
ontological terms and corresponding data into RDF triples. These RDF
triples are then stored in OWL and JSON-LD files, facilitating data
accessibility, interoperability, and knowledge unification. The triples
are also visualized in a graph saved as an SVG or as a PNG with the
Python package. The Python package has a fourth output too. It generates
documentation for the output ontology as an HTML.
Put the sheets, created from the template (described below), for one
or more ontologies in a folder and the ‘FAIRmaterials’
‘process_ontology_files’ or ‘FAIRSheetParser’ function will output a
JSON-LD, turtle/OWL, SVG/PNG visualization, and HTML documentation into
the input folder for all the input ontologies merged. Note that a folder
containing only files for one ontology will give results for just that
ontology and specifying a base uri is required for merging ontologies.
The package can handle subdirectories by producing separate unmerged
outputs for each subdirectory and a merged output from all files in the
input path. This tool, developed for use by the SDLE Research Center at
Case Western Reserve University, facilitates the creation and
visualization of material science ontologies.
How to use FAIR CSV template:
To Prepare your CSV files, ensure your CSV files contains the
appropriate ontological terms and corresponding data using this
template: FAIR
CSV Template
The XLSX versions of the templates can be found in the package using
this code:
# Load the necessary library
library(utils)
# Specifying the path to the Zip file
zip_file <- system.file("extdata", "FAIRSheetTemplatesZIP.zip", package = "FAIRmaterials")
# Extract files from the Zip
unzip(zip_file, exdir = "path/to/destination/for/templates")
