computeCore: Compute the core

In coreCollection: Core Collection

Compute the core

Description

The function computeCore is used internally by the CoreCollection object to compute the core.

Usage

computeCore(algorithm, method, dist, groups)

Arguments

algorithm	applied algorithm to find solution with method: currently, only randomDescent is available
method	required method for choosing the entries within the groups: A-NE (accession nearest entry), E-NE (entry nearest entry) or E-E (entry entry)
dist	distance matrix, used for distances and implicitly defining the set of entries
groups	the initially created subdivision into groups

Details

The A-NE method requires the core to minimize the average distance between each accession and the nearest entry within the core. The E-NE method requires the core to maximize the average distance between each core entry and its nearest neighbouring entry within the core. The E-E method requires the core to maximize the average distance between all core entries.

coreCollection documentation built on Dec. 20, 2022, 5:21 p.m.