errBarchart

errBarchart-methods

errBarchart,ddCtExpression,missing-method

errBarchart,ddCtExpression,character-method

Draw barchart (with error-bars) of relative expression level
 represented in <code>ddCtExpression</code> object. The
 barchart is implemented as grid plot by <code>lattice</code> package, where
 each panel represents one sample and the relative expression values of detectors (as
 well as their standard errors) are depicted as bars. Detectors which are not determined are marked by grey ND. Two types of figures are supported: either condition on samples
 (by="Sample") or on detectors (by="Detector").

methods

The Delta-Delta-Ct (ddCt) Algorithm is an approximation method to determine relative gene expression with quantitative real-time PCR (qRT-PCR) experiments. Compared to other approaches, it requires no standard curve for each primer-target pair, therefore reducing the working load and yet returning accurate enough results as long as the assumptions of the amplification efficiency hold. The ddCt package implements a pipeline to collect, analyse and visualize qRT-PCR results, for example those from TaqMan SDM software, mainly using the ddCt method. The pipeline can be either invoked by a script in command-line or through the API consisting of S4-Classes, methods and functions.

Jitao David Zhang

ddCt

The ddCt Algorithm for the Analysis of Quantitative Real-Time PCR (qRT-PCR)

errBarchart-methods function

<dl>
<dt>object = "ddCtExpression", by="character"</dt><dd> An object of <code>ddCtExpression</code>,
 constructed with the method <code><a rd-options="" href="/link/ddCtExpression?package=ddCt&version=1.28.0" data-mini-rdoc="ddCt::ddCtExpression">ddCtExpression</a></code></dd> </dl>

Methods

Draw barchart (with error-bars) of relative expression level
 represented in <code><linkS4class>ddCtExpression</linkS4class></code> object. The
 barchart is implemented as grid plot by <code>lattice</code> package, where
 each panel represents one sample and the relative expression values of detectors (as
 well as their standard errors) are depicted as bars.

 Detectors which are not determined are marked by grey ND.

 Two types of figures are supported: either condition on samples
 (by="Sample") or on detectors (by="Detector").

errBarchart-methods: Draw barchart of relative expression level with error-bars

Description

Arguments

Methods