data_2factorBlock3ref

A sample qPCR data set with blocking factor and 3 reference genes. Each line belongs to a separate individual (non-repeated measure experiment).

external

Tools for qPCR data analysis using Delta Ct and Delta Delta Ct methods, including t-test, wilcox.test, ANOVA models, and publication-ready visualizations. The package supports multiple target, and multiple reference genes, and uses a calculation framework adopted from Ganger et al. (2017) <doi:10.1186/s12859-017-1949-5> and Taylor et al. (2019) <doi:10.1016/j.tibtech.2018.12.002>, covering both the Livak and Pfaffl methods.

Ghader Mirzaghaderi

rtpcr

qPCR Data Analysis

data_2factorBlock3ref function

A data frame with 18 observations and 8 variables:<dl>
 <dt>Type</dt>
<dd>First experimental factor</dd> <dt>Concentration</dt>
<dd>Second experimental factor</dd> <dt>block</dt>
<dd>blocking factor</dd> <dt>Rep</dt>
<dd>Biological replicates</dd> <dt>PO</dt>
<dd>Mean amplification efficiency of PO gene</dd> <dt>Ct_PO</dt>
<dd>Ct values of PO gene. Each is the mean of technical replicates</dd> <dt>NLM</dt>
<dd>Mean amplification efficiency of NLM gene</dd> <dt>Ct_NLM</dt>
<dd>Ct values of NLM gene. Each is the mean of technical replicates</dd> <dt>ref1</dt>
<dd>Mean amplification efficiency of ref1 gene</dd> <dt>Ct_ref1</dt>
<dd>Ct values of ref1 gene. Each is the mean of technical replicates</dd> <dt>ref2</dt>
<dd>Mean amplification efficiency of ref2 gene</dd> <dt>Ct_ref2</dt>
<dd>Ct values of ref2 gene. Each is the mean of technical replicates</dd> <dt>ref3</dt>
<dd>Mean amplification efficiency of ref3 gene</dd> <dt>Ct_ref3</dt>
<dd>Ct values of GAPDH gene. Each is the mean of technical replicates</dd>
</dl>

Format

Sample data in (two factor with blocking factor and 3 reference genes) — data_2factorBlock3ref

A data frame with 18 observations and 8 variables:<dl>
 <dt>Type</dt>
<dd>First experimental factor</dd>

 <dt>Concentration</dt>
<dd>Second experimental factor</dd>

 <dt>block</dt>
<dd>blocking factor</dd>

 <dt>Rep</dt>
<dd>Biological replicates</dd>

 <dt>PO</dt>
<dd>Mean amplification efficiency of PO gene</dd>

 <dt>Ct_PO</dt>
<dd>Ct values of PO gene. Each is the mean of technical replicates</dd>

 <dt>NLM</dt>
<dd>Mean amplification efficiency of NLM gene</dd>

 <dt>Ct_NLM</dt>
<dd>Ct values of NLM gene. Each is the mean of technical replicates</dd>

 <dt>ref1</dt>
<dd>Mean amplification efficiency of ref1 gene</dd>

 <dt>Ct_ref1</dt>
<dd>Ct values of ref1 gene. Each is the mean of technical replicates</dd>

 <dt>ref2</dt>
<dd>Mean amplification efficiency of ref2 gene</dd>

 <dt>Ct_ref2</dt>
<dd>Ct values of ref2 gene. Each is the mean of technical replicates</dd>

 <dt>ref3</dt>
<dd>Mean amplification efficiency of ref3 gene</dd>

 <dt>Ct_ref3</dt>
<dd>Ct values of GAPDH gene. Each is the mean of technical replicates</dd>


</dl>

data_2factorBlock3ref: Sample data in (two factor with blocking factor and 3 reference genes)

Description

Usage

Arguments

Format