map_beta_div.Rd 1.52 KB
 jbferet committed Jul 01, 2019 1 2 % Generated by roxygen2: do not edit by hand % Please edit documentation in R/Lib_MapBetaDiversity.R  De Boissieu Florian committed Jul 06, 2019 3 4 \name{map_beta_div} \alias{map_beta_div}  jbferet committed Jul 01, 2019 5 6 \title{maps beta diversity indicator based on spectral species distribution} \usage{  De Boissieu Florian committed Jul 06, 2019 7 map_beta_div(Input.Image.File, Output.Dir, Spatial.Unit,  jbferet committed Jul 01, 2019 8 9  TypePCA = "SPCA", nbclusters = 50, Nb.Units.Ordin = 2000, MinSun = 0.25, pcelim = 0.02, scaling = "PCO", FullRes = TRUE,  Florian de Boissieu committed Jul 02, 2019 10  LowRes = FALSE, nbCPU = 1, MaxRAM = 0.25)  jbferet committed Jul 01, 2019 11 12 } \arguments{  Florian de Boissieu committed Jul 02, 2019 13 \item{Input.Image.File}{character. Path and name of the image to be processed.}  jbferet committed Jul 01, 2019 14   Florian de Boissieu committed Jul 02, 2019 15 \item{Output.Dir}{character. Output directory.}  jbferet committed Jul 01, 2019 16   Florian de Boissieu committed Jul 02, 2019 17 \item{Spatial.Unit}{numeric. Dimensions of the spatial unit.}  jbferet committed Jul 01, 2019 18   Florian de Boissieu committed Jul 02, 2019 19 \item{TypePCA}{character. Type of PCA (PCA, SPCA, NLPCA...).}  jbferet committed Jul 01, 2019 20   Florian de Boissieu committed Jul 02, 2019 21 \item{nbclusters}{numeric. Number of clusters defined in k-Means.}  jbferet committed Jul 01, 2019 22   Florian de Boissieu committed Jul 02, 2019 23 \item{Nb.Units.Ordin}{numeric. Maximum number of spatial units to be processed in NMDS.  jbferet committed Jul 01, 2019 24 25 26 --> 1000 will be fast but may not capture important patterns if large area --> 4000 will be slow but may show better ability to capture landscape patterns}  Florian de Boissieu committed Jul 02, 2019 27 \item{MinSun}{numeric. Minimum proportion of sunlit pixels required to consider plot.}  jbferet committed Jul 01, 2019 28   Florian de Boissieu committed Jul 02, 2019 29 30 31 32 33 34 35 36 37 38 39 \item{pcelim}{numeric. Minimum contribution (in \%) required for a spectral species} \item{scaling}{character. "PCO" or "NMDS".} \item{FullRes}{boolean.} \item{LowRes}{boolean.} \item{nbCPU}{numeric. Number of CPUs to use in parallel.} \item{MaxRAM}{numeric. MaxRAM maximum size of chunk in GB to limit RAM allocation when reading image file.}  jbferet committed Jul 01, 2019 40 41 42 43 } \description{ maps beta diversity indicator based on spectral species distribution }