fnc: Find next cell function

In roots: Reconstructing Ordered Ontogenic Trajectories

Description

Find next cell function

Usage

fnc(rdmap, tm, curInd, mom = NULL, momAdj = 0.5, w1 = exp(1), w2 = 1,
  varEst = 10)

Arguments

rdmap	reduced dimensionality matrix with cells in rows and dims in columns
tm	Transition matrix
curInd	Current state on tm
mom	Current momentum vector
momAdj	Weighting to adjust momentum. From 0-1. Lower numbers make smaller adjustment to momentum vector.
w1	Parameter - Base used for modifying of tm probs.
w2	Parameter - Multiplifaction factor used for modifying tm probs.
varEst	Number of alternatives to sample for estimating variance.

Details

Find next cell function. Transitioin probabilities are modifed by calulating the cosine of the angle between the current momentum vector and the vector on the rdmap required for each transtion. The tranisiton probability is adjusted by multiplying by w1^(w2 * (cosine_angle)) and then normalising.

Value

Returns index of new cell and new momentum vector

Author(s)

Wajid Jawaid

Examples

## Not run: 
nextCell <- fnc(rdmap, tm, curInd)

## End(Not run)

roots documentation built on May 2, 2019, 6:45 a.m.