computeCore

The function <code>computeCore</code> is used internally by
the <code>CoreCollection</code> object to compute the core.

internal

Create a custom sized Core Collection based on a distance matrix and applying
the A-NE (accession nearest entry), E-NE (entry nearest entry) or E-E (entry entry) method
as introduced in Jansen and van Hintum (2007) <doi:10.1007/s00122-006-0433-9> and
further elaborated on in Odong, T.L. (2012) <https://edepot.wur.nl/212422>.
Optionally a list of preselected accessions to be included into the core can be set.
For each accession in the computed core, if available nearby accessions are retrievable
that can be used as an alternative.

Matthijs Brouwer

coreCollection

Core Collection

Reinhoud Blok, de

computeCore function

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

Arguments

Compute the core — computeCore

<dl>

<dt>algorithm</dt>
<dd>applied algorithm to find solution with method: currently, only <code>randomDescent</code> is available</dd>


<dt>method</dt>
<dd>required method for choosing the entries within the groups: <code>A-NE</code> (accession nearest entry), <code>E-NE</code> (entry nearest entry) or <code>E-E</code> (entry entry)</dd>


<dt>dist</dt>
<dd>distance matrix, used for distances and implicitly defining the set of entries</dd>


<dt>groups</dt>
<dd>the initially created subdivision into groups</dd>

</dl>

computeCore: Compute the core

Description

Usage

Arguments

Details