refineFunction: Refinement
In rhondabacher/methylscaper: Visualization of Methylation Data

refineFunction

R Documentation

Refinement

Description

Reorders a subset of the methylation data.

Usage

refineFunction(orderObject, refineStart, refineEnd, Method = "PCA")

Arguments

`orderObject`	An object of class `orderObject`, generated with the `initialOrder` function.
`refineStart`	The index of the first sample (row) used in the refinement.
`refineEnd`	The index of the last sample (row) used in the refinement.
`Method`	The seriation method used to perform the refinement.

Value

The refinement reorders the cells/molecules (rows) between the indicated start and end positions. The function returns the new complete ordering with the refinement applied.

Examples

 
data(singlemolecule_example)

orderObj <- initialOrder(singlemolecule_example, Method = "PCA")
# reordering the first 50 cells/molecules (rows)
orderObj$order1 <- refineFunction(orderObj, 1, 50)

rhondabacher/methylscaper documentation built on April 18, 2023, 1:47 p.m.