# Access to the Neotoma Paleoecological Database Through R

## Documentation for package ‘neotoma’ version 1.7.4

- DESCRIPTION file.
- Package NEWS.

## Help Pages

ages | Access proxy age data
ages.download | Access proxy age data
ages.download_list | Access proxy age data
bind | Function to bind objects together into a longer object.
browse | Open a browser window to display a Neotoma dataset within the Neotoma Explorer
browse.dataset | Open a browser window to display a Neotoma dataset within the Neotoma Explorer
browse.dataset_list | Open a browser window to display a Neotoma dataset within the Neotoma Explorer
browse.default | Open a browser window to display a Neotoma dataset within the Neotoma Explorer
browse.download | Open a browser window to display a Neotoma dataset within the Neotoma Explorer
browse.download_list | Open a browser window to display a Neotoma dataset within the Neotoma Explorer
compile_downloads | Compile download objects
compile_taxa | Function to convert assemblage taxa to standardized lists.
counts | Access proxy count data
counts.download | Access proxy count data
counts.download_list | Access proxy count data
depths | Extracts the depth values from a 'download' object
depths.default | Extracts the depth values from a 'download' object
depths.download | Extracts the depth values from a 'download' object
depths.download_list | Extracts the depth values from a 'download' object
download | A class for download objects.
get_chroncontrol | Function to return chronological control tables used to build age models.
get_chroncontrol.dataset | Function to return chronological control tables from a 'dataset'.
get_chroncontrol.dataset_list | Function to return chronological control tables from a 'dataset_list'.
get_chroncontrol.default | Function to return chronological control tables from a chronologic ID.
get_chroncontrol.download | Function to return chronological control tables from a 'download' object.
get_chroncontrol.download_list | Function to return chronological control tables from a 'download_list' object.
get_closest | Find the closest dataset records to a site, dataset or long/lat pair in Neotoma
get_contact | Get contact information.
get_dataset | Obtain dataset information from the Neotoma Paleoecological Database or an existing object.
get_dataset.default | Obtain dataset information from the Neotoma Paleoecological Database or an existing object.
get_dataset.download | Obtain dataset information from an existing 'download' object.
get_dataset.download_list | Obtain dataset information from a 'download_list'.
get_dataset.geochronologic | Obtain dataset information from an object of class 'geochronologic'.
get_dataset.geochronologic_list | Obtain dataset information from an object of class 'geochronologic_list'.
get_dataset.integer | Obtain dataset information from a vector of dataset IDs.
get_dataset.numeric | Obtain dataset information from a vector of dataset IDs.
get_dataset.site | Obtain dataset information from an existing 'site' object.
get_download | Function to return full download records using 'site's, 'dataset's, or dataset IDs.
get_download.dataset | Function to return full download records using a 'dataset'.
get_download.dataset_list | Function to return full download records using a 'dataset_list'.
get_download.default | Function to return full download records using 'numeric' dataset IDs.
get_download.site | Function to return full download records using a 'site'.
get_geochron | Function to return geochronological data from records.
get_publication | A function to get publications for sites or datasets in the Neotoma Database using the API.
get_publication.dataset | A function to get publications for datasets in the Neotoma Database using the API.
get_publication.dataset_list | A function to get publications for dataset_lists in the Neotoma Database using the API.
get_publication.default | A function to get publications for sites or datasets in the Neotoma Database using the API.
get_publication.download | A function to get publications for downloads in the Neotoma Database using the API.
get_publication.download_list | A function to get publications for datasets in the Neotoma Database using the API.
get_site | Return Site Information.
get_site.dataset | Return Site Information from a numeric list of site ids.
get_site.dataset_list | Return Site Information from a 'dataset_list'
get_site.default | Return Site Information.
get_site.download | Return Site Information from a 'download'
get_site.download_list | Return Site Information from a 'download_list'
get_site.geochronologic | Return Site Information from a 'geochronologic'
get_site.geochronologic_list | Return Site Information from a 'geochronologic_list'
get_site.integer | Return Site Information from a vector of integers.
get_site.numeric | Return Site information from a vector of numeric elements.
get_table | Get Neotoma value tables.
get_taxa | Get taxon information from Neotoma.
gp.table | A list of all the geopolitical entities in the Neotoma database.
plot_leaflet | Leaflet plots for neotoma data.
pollen.equiv | A table to convert the pollen taxa identified by investigators to standardized lists.
read.tilia | Read proxy data from Tilia TLX files
read_bacon | Function to read in defined Bacon outputs.
Stratiplot.download | Palaeoecological stratigraphic diagrams
Stratiplot.download_list | Palaeoecological stratigraphic diagrams
taxa | Access proxy taxonomic data
taxa.download | Access proxy taxonomic data
taxa.download_list | Access proxy taxonomic data
taxon.list | Neotoma taxon list
translate.table | A table to convert the original taxa to standardized lists.
write_agefile | Write age control file to disk formatted for either Bacon or Clam