Read in FLUXNET data — flux

Reads and minimally cleans FLUXNET data found by flux_discover_files().

Usage

flux_read(
  manifest,
  resolution = c("y", "m", "w", "d", "h"),
  datasets = c("ERA5", "FLUXMET"),
  networks = c("AMF", "CNF", "EUF", "FLX", "ICOS", "JPF", "KOF", "SAEON", "TERN"),
  site_ids = "all"
)

Arguments

manifest: A manifest data frame produced by flux_discover_files().
resolution: The time resolution to read in. Must be one of "y" (annual), "m" (monthly), "w" (weekly), "d" (daily), or "h" (hourly/half-hourly).
datasets: Character vector of one or both of "FLUXMET" or "ERA5". Defaults to both.
networks: A character vector indicating which networks to extract files from. Multiple values may be provided. Defaults to all networks.
site_ids: A vector of site IDs to filter the manifest by. If "all" (the default), the manifest isn't filtered by site ID.

Examples

if (FALSE) { # \dontrun{
manifest <- flux_discover_files()
daily <- flux_read(manifest, resolution = "d")
annual <- flux_read(manifest, resolution = "y")

# Filter manifest by metadata first
metadata <- flux_listall()

library(dplyr)
manifest_enriched <- left_join(manifest, metadata, by = join_by(site_id))
manifest_WET <- manifest_enriched %>% filter(igbp == "WET")
annual_wet <- flux_read(manifest_WET, resolution = "y")

} # }