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Retrieve Macrostrat section data

Source: R/get_sections.R
get_sections.Rd

A function to retrieve Macrostrat units contained within gap-bound packages (sections).

Usage

get_sections(
  section_id = NULL,
  column_id = NULL,
  unit_id = NULL,
  strat_name = NULL,
  strat_name_id = NULL,
  interval_name = NULL,
  interval_id = NULL,
  age = NULL,
  age_top = NULL,
  age_bottom = NULL,
  lat = NULL,
  lng = NULL,
  lithology = NULL,
  lithology_id = NULL,
  lithology_group = NULL,
  lithology_type = NULL,
  lithology_class = NULL,
  lithology_att = NULL,
  lithology_att_id = NULL,
  lithology_att_type = NULL,
  environ = NULL,
  environ_id = NULL,
  environ_type = NULL,
  environ_class = NULL,
  pbdb_collection_no = NULL,
  econ = NULL,
  econ_id = NULL,
  econ_type = NULL,
  econ_class = NULL,
  project_id = NULL,
  adjacents = FALSE
)

Arguments

section_id

integer. Filter sections by their unique identification number(s).

column_id

integer. Filter sections to those contained within column(s) as specified by their unique identification number(s).

unit_id

integer. Filter sections to those containing unit(s) as specified by their unique identification number(s).

strat_name

character. Filter sections to those containing a unit that fuzzy matches a stratigraphic name (e.g., "Hell Creek").

strat_name_id

integer. Filter sections to those containing a unit that matches one or more stratigraphic name(s) as specified by their unique identification number(s).

interval_name

character. Filter sections to those that overlap with a named chronostratigraphic time interval (e.g., "Permian").

interval_id

integer. Filter sections to those that overlap with a chronostratigraphic time interval as specified by their unique identification number(s).

age

numeric. Filter sections to those that overlap with the specified numerical age, in millions of years before present.

age_top

numeric. Filter sections to those that overlap with the age range between the specified numerical age and age_bottom. Should be in millions of years before present. age_bottom must also be specified, and this must be younger than age_bottom.

age_bottom

numeric. Filter sections to those that overlap with the age range between the specified numerical age and age_top. Should be in millions of years before present. age_top must also be specified, and this must be older than age_top.

lat

numeric. Return the sections at the specified decimal degree latitude. Must also specify lng.

lng

numeric. Return the sections at the specified decimal degree longitude. Must also specify lat.

lithology

character. Filter sections to those containing a named lithology (e.g., "shale", "sandstone").

lithology_id

integer. Filter sections to those containing one or more lithology(ies) as specified by their unique identification number(s).

lithology_group

character. Filter sections to those containing a named lithology group (e.g., "sandstones", "mudrocks", "unconsolidated").

lithology_type

character. Filter sections to those containing a named lithology type (e.g., "carbonate", "siliciclastic").

lithology_class

character. Filter sections to those containing a named lithology class (e.g., "sedimentary", "igneous", "metamorphic").

lithology_att

character. Filter sections to those containing a named lithology attribute (e.g., "fine", "olivine", "poorly washed").

lithology_att_id

integer. Filter sections to those containing one or more lithology attribute(s) as specified by their unique identification number(s).

lithology_att_type

character. Filter sections to those containing a named category of lithology attribute (e.g., "grains", "lithology", "bedform").

environ

character. Filter sections to those containing a named environment (e.g., "delta plain", "pond").

environ_id

integer. Filter sections to those containing one or more environment(s) as specified by their unique identification number(s).

environ_type

character. Filter sections to those containing a named environment type (e.g., "fluvial", "eolian", "glacial").

environ_class

character. Filter sections to those containing a named environment class (e.g., "marine", "non-marine").

pbdb_collection_no

integer. Filter sections to those containing one or more Paleobiology Database collection(s) as specified by their unique identification number(s).

econ

character. Filter sections to those containing a named economic attribute (e.g., "brick", "ground water", "gold").

econ_id

integer. Filter sections to those containing one or more economic attribute(s) as specified by their unique identification number(s).

econ_type

character. Filter sections to those containing a named economic attribute type (e.g., "construction", "aquifer", "mineral").

econ_class

character. Filter sections to those containing a named economic attribute class (e.g., "material", "water", "precious commodity").

project_id

integer. Filter sections to those contained within one or more Macrostrat project(s) as specified by their unique identification number(s).

adjacents

logical. If column_id or lat/lng is specified, should all sections that touch the specified column be returned? Defaults to FALSE.

Value

A dataframe containing the following columns:

  • col_id: The unique identification number of the Macrostrat column containing the section.

  • col_area: The area of the associated Macrostrat column in km2.

  • section_id: The unique identification number of the Macrostrat section.

  • project_id: The unique identification number of the Macrostrat project.

  • max_thick: The maximum thickness of the section, in meters.

  • min_thick: The minimum thickness of the section, in meters.

  • t_age: The age of the top of the section, estimated using the continuous time age model, in millions of years before present.

  • b_age: The age of the bottom of the section, estimated using the continuous time age model, in millions of years before present.

  • pbdb_collections: The number of PBDB collections contained within the section.

  • lith: a dataframe containing the lithologies present within the section, with the following columns:

    • name: The named lithology (e.g., "sandstone").

    • type: The named lithology type (e.g., "siliciclastic").

    • class: The named lithology class (e.g., "sedimentary").

    • prop: The proportion of the lithology within the section, calculated from the individual Macrostrat units within the section.

    • lith_id: The unique identification number of the lithology.

  • environ: a dataframe containing the environments present within the section, with the following columns:

    • name: The named environment (e.g., "delta plain").

    • type: The named environment type (e.g., "siliciclastic").

    • class: The named environment class (e.g., "marine").

    • prop: The proportion of the environment within the section, calculated from the individual Macrostrat units within the section.

    • environ_id: The unique identification number of the environment.

  • econ: a dataframe containing the economic attributes present within the section, with the following columns:

    • name: The named economic attribute (e.g., "gold").

    • type: The named economic attribute type (e.g., "mineral").

    • class: The named economic attribute class (e.g., "precious commodity").

    • prop: The proportion of the economic attribute out of all economic attributes contained within the section, calculated from the individual Macrostrat units within the section.

    • econ_id: The unique identification number of the economic attribute.

Details

More information can be found for the inputs for this function using the definition functions (beginning with defs_).

Developer(s)

Christopher D. Dean

Reviewer(s)

Bethany Allen

See also

Macrostrat data entities: def_columns(), get_age_model(), get_columns(), get_units()

Examples

# \donttest{
# Get sections within a specified column
ex1 <- get_sections(column_id = 10)
# Get sections at a specific geographic coordinate
ex2 <- get_sections(lng = -110.9, lat = 48.4)
# }