gwpca.cv | R Documentation |
This function finds the cross-validation score for a specified bandwidth for basic or robust GWPCA. It can be used to construct the bandwidth function across all possible bandwidths and compared to that found automatically.
gwpca.cv(bw,x,loc,k=2,robust=FALSE,kernel="bisquare",adaptive=FALSE,p=2,
theta=0, longlat=F,dMat)
bw |
bandwidth used in the weighting function;fixed (distance) or adaptive bandwidth(number of nearest neighbours) |
x |
the variable matrix |
loc |
a two-column numeric array of observation coordinates |
k |
the number of retained components; k must be less than the number of variables |
robust |
if TRUE, robust GWPCA will be applied; otherwise basic GWPCA will be applied |
kernel |
function chosen as follows: gaussian: wgt = exp(-.5*(vdist/bw)^2); exponential: wgt = exp(-vdist/bw); bisquare: wgt = (1-(vdist/bw)^2)^2 if vdist < bw, wgt=0 otherwise; tricube: wgt = (1-(vdist/bw)^3)^3 if vdist < bw, wgt=0 otherwise; boxcar: wgt=1 if dist < bw, wgt=0 otherwise |
adaptive |
if TRUE calculate an adaptive kernel where the bandwidth (bw) corresponds to the number of nearest neighbours (i.e. adaptive distance); default is FALSE, where a fixed kernel is found (bandwidth is a fixed distance) |
p |
the power of the Minkowski distance, default is 2, i.e. the Euclidean distance |
theta |
an angle in radians to rotate the coordinate system, default is 0 |
longlat |
if TRUE, great circle distances will be calculated |
dMat |
a pre-specified distance matrix, it can be calculated by the function |
CV.score |
cross-validation score |
Binbin Lu binbinlu@whu.edu.cn
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