Exchange data with SPACECAP package

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Description

Data in a single-session secr capthist object may be written directly to the ‘csv’ format used by SPACECAP, a package for Bayesian spatially explicit capture–recapture (Singh et al. 2010). Data in csv format may also be read to construct a capthist object for analysis in secr.

Usage

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write.SPACECAP(object, mask = NULL, buffer = 100, ndec = 2,
    filestem = "")
read.SPACECAP(AC, TD, detector = "proximity", session = "1")

Arguments

object

capthist object with the captures and trap locations to export

mask

mask object to use for state-space file

buffer

width of buffer in metres to use when creating a mask if none is specified

ndec

number of digits after decimal point for coordinates of mask on output

filestem

character value used to form names of output files

AC

character value giving name of ‘animal capture’ .csv file

TD

character value giving name of ‘trap deployment’ .csv file

detector

detector type (‘proximity’ or ‘count’)

session

character value to use as session name

Details

If successful, write.SPACECAP creates three output files with names ending in ‘AC.csv’,‘TD.csv’ and ‘SS.csv’. These are respectively the ‘Animal Capture’, ‘Trap Deployment’ and ‘State-Space’ files required by SPACECAP.

Value

write.SPACECAP is used for its side effect of writing the required csv files. read.SPACECAP returns a capthist object.

Note

State-space csv files may be imported with read.mask.

References

Gopalaswamy, A.M., Royle, J.A., Hines, J.E., Singh, P., Jathanna, D., Kumar, N.S. and Karanth, K.U. (2012) Program SPACECAP: software for estimating animal density using spatially explicit capture–recapture models. Methods in Ecology and Evolution 3, 1067–1072.

Singh, P., Gopalaswamy, A. M., Royle, A. J., Kumar, N. S. and Karanth, K. U. (2010) SPACECAP: A program to estimate animal abundance and density using Bayesian spatially explicit capture-recapture models. Version 1.0. Wildlife Conservation Society - India Program, Centre for Wildlife Studies, Bangalore, India.

See Also

capthist, mask, read.mask

Examples

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## Not run: 

## coerce data to proximity detector type for export
demo <- reduce(captdata, output = "proximity") 
write.SPACECAP (demo, filestem = "demo")

## now read back the data just exported...
temp <- read.SPACECAP ("demoAC.csv", "demoTD.csv")
temp <- reduce(temp, output = "multi")
summary (temp)
summary (captdata)

## should match exactly
identical(summary(temp), summary(captdata))


## End(Not run)

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