ChromatogramParam-class: ChromatogramParam

In sangeranalyseR: sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R

Description

An S4 class storing chromatogram related inputs in a SangerRead S4 object.

Slots

baseNumPerRow

It defines maximum base pairs in each row. The default value is 100.

heightPerRow

It defines the height of each row in chromatogram. The default value is 200.

signalRatioCutoff

The ratio of the height of a secondary peak to a primary peak. Secondary peaks higher than this ratio are annotated. Those below the ratio are excluded. The default value is 0.33.

showTrimmed

The logical value storing whether to show trimmed base pairs in chromatogram. The default value is TRUE.

Author(s)

Kuan-Hao Chao

Examples

Chromatogram <- new("ChromatogramParam",
                     baseNumPerRow      = 100,
                     heightPerRow       = 200,
                     signalRatioCutoff  = 0.33,
                     showTrimmed        = TRUE)

sangeranalyseR documentation built on Nov. 8, 2020, 5:59 p.m.