getCategoryFrequenciesNode: retrieves the category frequencies for one node
In adibender/rFtools: Tools for the analysis of Random Forests (and cforest)

Description Usage Arguments Details Value Warning Note See Also

For a specified node of a tree this function retrieves the category frequencies for each SNP.

1	getCategoryFrequenciesNode(SNPmatrix = matrix(), splitVar = numeric())

`SNPmatrix`	A `matrix` containing the SNPs used in the analysis.
`splitVar`	A `numeric` indicating the variable used to split the considered Node.

The provided matrix could technically be any Matrix with categorical variables. In context of this package it will usually be a subset of the original SNP data set containing only the observations still 'active' in the considered node. The splitVar argument also only makes sense in this particular setting.

A 5 x n.snps matrix, where n.snps is the number of SNP variables in SNPmatrix. The rows contain in this order:

	An indicator whether a variable was used for splitting in the considered node; `0 =` no, `1 =` yes
	The number of category 0 ( = AA) observations
	The number of category 1 ( = Aa) observations
	The number of category 2 ( = aa) observations
	Number of levels/different categories a variable/SNP has in the according node.

This function only counts the instances of observations having one of the values 0, 1 or 2. If you provide a SNPmatrix with differently coded categories, you will get wrong results.

Calls the underlying Rcpp/C++ function with the same name.

getCategoryFrequenciesTree, getCategoryFrequenciesForest

adibender/rFtools documentation built on May 14, 2019, 5:13 a.m.