These manuals are designed to provide an entry point to the database and to using the Tilia program. They are also community-curated works in progress - if you see something that needs to be changed, please submit an edit request!
Neotoma users can rely on the neotoma2 R package (replacing the neotoma R package). This package has been developed to work with Neotoma data in the R programming environment. Several workshops and guides have been developed including:
A Simple Workflow: Searches, spatial searches, simple plotting, stratigraphic plotting, and some basic analysis.
A Complex Workflow: Working with chronologies in neotoma2.
Users may find the “Binder” tools useful when working with the workflows. The Binder link will create an instance of RStudio in your browser with all the required packages and data pre-loaded so that you don’t have to worry about installing R, RStudio or any of the required packages locally.
API Documentation - Programmatic access to Neotoma data through the web. Access data about publications, sites, datasets and any other facet of Neotoma data using URL strings, for example: https://api.neotomadb.org/v2.0/data/sites?sitename=%Louise% will return information about all sites in Neotoma that use the term “Louise” in their site name.
Dataset Landing Pages - every dataset in Neotoma is assigned a DOI. You can view each dataset, and associated datasets at the site, via the landing pages. These pages do not support “Search” capabilities. They are intended to provide all critical metadata for datasets within Neotoma.
Database Schema - A fast reference for the database structure. Includes information about primary and foreign keys, as well as indexes and overall database structure.
There is an active community of Neotomites on Slack. You can join the Neotoma Slack community via this link.