calculateMindist: Deprecated function to calculate the minimum distance

Description Usage Arguments

Description

The 'minimum distance' is the minimum signed absolute difference of the parental log R ratios and the offspring log R ratios. Specifically, let |O-F| denote the absolute difference in the log R ratios comparing offspring to father and |O-M| the absolute difference in the log R ratios comparing offspring to mother. The minimum distance at a marker is the signed minimum of |O-M| and |O-F|. After segmentation of the minimum distance, non-zero segments can indicate a de novo difference in the log R ratio of the offspring and either parent. For example, a positive minimum distance suggests that the log R ratio from the offspring is greater than the log R ratio of either parent.

Usage

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calculateMindist(object, ...)

## S4 method for signature 'TrioSet'
calculateMindist(object, verbose = TRUE, ...)

## S4 method for signature 'TrioSetList'
calculateMindist(object)

## S4 method for signature 'list'
calculateMindist(object, outdir = ldPath(), ...)

## S4 method for signature 'arrayORff_array'
calculateMindist(object, outdir, center, ...)

## S4 method for signature 'matrix'
calculateMindist(object, ...)

Arguments

object

see showMethods("calculateMindist")

...

Ignored

verbose

logical. Whether to display messages indicating progress.

outdir

character string indicating path to save output

center

ignored


rscharpf/MinimumDistance documentation built on Sept. 16, 2019, 4:12 a.m.