sNeighAny: Function to calculate any neighbors for each...

In supraHex: supraHex: a supra-hexagonal map for analysing tabular omics data

Description

sNeighAny is supposed to calculate any neighbors for each hexagon/rectangle in a regular 2D grid. It returns a matrix with rows for the self, and columns for its any neighbors.

Usage

sNeighAny(sObj)

Arguments

sObj	an object of class "sTopol" or "sInit" or "sMap"

Value

• aNeigh: a matrix of nHex x nHex, containing distance info in terms of any neighbors, where nHex is the total number of hexagons/rectanges in the grid

Note

The return matrix has rows for the self, and columns for its neighbors. The non-zeros mean the distance away from its neighbors, and the zeros for the self-self. It has rows/columns ordered in the same order as the "coord" matrix of the input object does.

See Also

sNeighDirect

Examples

# 1) generate an iid normal random matrix of 100x10 
data <- matrix( rnorm(100*10,mean=0,sd=1), nrow=100, ncol=10)

# 2) from this input matrix, determine nHex=5*sqrt(nrow(data))=50, 
# but it returns nHex=61, via "sHexGrid(nHex=50)", to make sure a supra-hexagonal grid
sTopol <- sTopology(data=data, lattice="hexa", shape="suprahex")

# 3) initialise the codebook matrix using "uniform" method
sI <- sInitial(data=data, sTopol=sTopol, init="uniform")

# 4) calculate any neighbors based on different objects
# 4a) based on an object of class "sTopol"
aNeigh <- sNeighAny(sObj=sTopol)
# 4b) based on an object of class "sMap"
# aNeigh <- sNeighAny(sObj=sI)

supraHex documentation built on May 24, 2021, 3 p.m.