CalculateElasticTree: Calculate Elastic Tree

Description Usage Arguments Value

View source: R/ElasticPrincipalTree.R

Description

Calculates an elastic tree using a scaffold tree to initialize it. A set of N_yk nodes are included one byone into a tree structure that minimizes an error and an energetic functions to the cell coordinates. The initialization with the scaffold tree ensures that the correct number of endpoints and branchpoints and their connectivity are preserved in the elastic tree interpolation.

Usage

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CalculateElasticTree(ScaffoldTree, N_yk = 100, lambda_0 = 8e-10,
  mu_0 = 0.0025, FixEndpoints = F, plot = F,
  NBranchScaffoldNodes = 1, NCores = 1)

Arguments

ScaffoldTree

scaffoldTree calculated by the CalculateScaffoldTree function

N_yk

number of nodes for the elastic principal tree

lambda_0

principal elastic tree energy function parameter.

mu_0

principal elastic tree energy function parameter

FixEndpoints

Whether or not the end points coordinates are fixed

plot

Whether or not plots are produced

NBranchScaffoldNodes

Whether or not to add middle scaffold nodes

NCores

number of CPU cores to be used for the calculation

Value

ElasticTree


soedinglab/merlot documentation built on June 28, 2020, 9:36 a.m.