filterEchoData {birdscanR}

filterEchoData

Description

With the function filterEchoData the echo data can be filtered by several parameters. The function returns the filtered echo data.

Usage

filterEchoData(
  echoData = NULL,
  timeRangeTargetTZ = NULL,
  targetTimeZone = "Etc/GMT0",
  protocolData = NULL,
  classSelection = NULL,
  classProbCutOff = NULL,
  altitudeRange_AGL = NULL,
  manualBlindTimes = NULL,
  echoValidator = FALSE
)

Arguments

echoData

dataframe with the echo data from the data list created by the function extractDBData.

timeRangeTargetTZ

Character vector of length 2, with start and end of time range, formatted as "%Y-%m-%d %H:%M". Echoes outside the time range will be excluded.

targetTimeZone

"Etc/GMT0" String specifying the target time zone. Default is "Etc/GMT0".

protocolData

dataframe with the protocol data from the data list created by the function extractDBData or a subset of it created by the function filterProtocolData. Echoes not detected during the listed protocols will be excluded.

classSelection

character string vector with the classes that should be included.

classProbCutOff

numeric cutoff value for class probabilities. Echoes with a lower class probability will be excluded.

altitudeRange_AGL

numeric vector of length 2 with start and end of the altitude range. Echoes outside the altitude range will be excluded.

manualBlindTimes

dataframe with the manual blind times created by the function loadManualBlindTimes.

echoValidator

logical, if set to TRUE, echoes labelled by the echo validator as “non-bio scatterer” will be excluded. If set to FALSE, all echoes are included.

Value

returns the filtered echo data in the same format as provided in the parameter echoData.

Author(s)

Fabian Hertner, [e-mail]; Birgen Haest, [e-mail]

Examples

## Not run: 
# Set server, database, and other input settings for data extraction
# ===========================================================================
  dbServer       = "MACHINE\\SERVERNAME"     # Set the name of your SQL server
  dbName         = "db_Name"                   # Set the name of your database
  dbDriverChar   = "SQL Server"                # Set either "SQL Server" or "PostgreSQL"
  mainOutputDir  = file.path(".", "results")
  radarTimeZone  = "Etc/GMT0"
  targetTimeZone = "Etc/GMT0"
  listOfRfFeaturesToExtract = c(167, 168)
  siteLocation   = c(47.494427, 8.716432)
  sunOrCivil     = "civil"
 
# Get data
# ===========================================================================
  dbData = extractDbData(dbDriverChar                   = dbDriverChar,
                         dbServer                       = dbServer, 
                         dbName                         = dbName, 
                         saveDbToFile                   = TRUE,
                         dbDataDir                      = mainOutputDir,
                         radarTimeZone                  = radarTimeZone,
                         targetTimeZone                 = targetTimeZone,
                         listOfRfFeaturesToExtract      = listOfRfFeaturesToExtract,
                         siteLocation                   = siteLocation, 
                         sunOrCivil                     = sunOrCivil)
                         
# Set input settings for filtering of the data
# ===========================================================================
  timeRangeData     = c("2021-01-15 00:00", "2021-01-31 00:00")
  classSelection    = c("passerine_type", "wader_type", "swift_type", 
                        "large_bird", "unid_bird", "bird_flock")
  classProbCutoff   = NULL
  altitudeRange     = c(50, 1000)
  data(manualBlindTimes)
  cManualBlindTimes = manualBlindTimes
  useEchoValidator  = FALSE

# Filter the echo data
# ===========================================================================
  filteredEchoData = filterEchoData(echoData           = dbData$echoData,
                                    timeRangeTargetTZ  = timeRangeData,
                                    targetTimeZone     = targetTimeZone,
                                    protocolData       - dbData$protocolData,
                                    classSelection     = classSelection, 
                                    classProbCutOff    = classProbCutoff, 
                                    altitudeRange_AGL  = altitudeRange, 
                                    manualBlindTimes   = cManualBlindTimes, 
                                    echoValidator      = useEchoValidator)   

## End(Not run)