randomiseCapilar: Randomise specimens over different capilar AFLP plates.
In AFLP: Analysis of AFLP data

Description Usage Arguments Value Author(s) See Also Examples

This function randomises Specimens over the required number of plates depending on the size of the plates, the minimum ratio of replications and the number of quality control specimens per plate.

  randomiseCapilar(Specimens, Group, FirstLabID = 1,
    Prefix = "", nCapilar = 8, nLines = 12, QC,
    rReplicates = 0.1, minReplicates = 8,
    fillPlate = FALSE)

`Specimens`	Either the number of specimens or a vector with the names of the specimens.
`Group`	A vector indication the a priori clustering of specimens. Must be as long as the number of specimens and in the same order. When missing, no a priori clustering is assumed. Defaults to NULL.
`FirstLabID`	Start the replicate numbering at this number. Defaults to 1.
`Prefix`	Optional prefix for the replicate names. Defaults to "".
`nCapilar`	Number of available capilars. Defaults to 8.
`nLines`	Number of available lines on a plate. Defaults to 12.
`QC`	A data.frame with the positions of the quality control samples. See the examples.
`rReplicates`	Percentage of the samples that are reserved for replicates. Default = 0.1 (10%).
`minReplicates`	Minimum number of samples reserved for replicates. Defaults to 8. Only relevant when the number of specimens is very low.
`fillPlate`	If TRUE, all plates will be filled with samples. If needed, extra specimens are replicated. If FALSE, only the lines will be filled. Possibly leaves one or more lines on the last plate without samples. Defaults to TRUE.

Results in an AFLP object with randomised replicates.

Thierry Onkelinx Thierry.Onkelinx@inbo.be, Paul Quataert

as.AFLP, normalise

randomiseCapilar(100)

	#example with quality control samples
	QCsamples <- data.frame(
   Capilar = c("E", "F"),
   Line = c(5, 5),
   ID = c("BL", "QCmethod"),
   Type = c("Blanco","QC")
 )
	nSpecimens <- 180
	Group <- sample(10, nSpecimens, replace = TRUE)
	randomiseCapilar(nSpecimens, Group,
   FirstLabID = 626, Prefix = "C/11/", QC = QCsamples)