rtpcr - qPCR Data Analysis
Various methods are employed for statistical analysis and
graphical presentation of real-time PCR (quantitative PCR or
qPCR) data. 'rtpcr' handles amplification efficiency
calculation, statistical analysis and graphical representation
of real-time PCR data based on up to two reference genes. By
accounting for amplification efficiency values, 'rtpcr' was
developed using a general calculation method described by
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. Based on the experimental
conditions, the functions of the 'rtpcr' package use t-test
(for experiments with a two-level factor), analysis of variance
(ANOVA), analysis of covariance (ANCOVA) or analysis of
repeated measure data to calculate the fold change (FC, Delta
Delta Ct method) or relative expression (RE, Delta Ct method).
The functions further provide standard errors and confidence
intervals for means, apply statistical mean comparisons and
present significance. To facilitate function application,
different data sets were used as examples and the outputs were
explained. ‘rtpcr’ package also provides bar plots using
various controlling arguments. The 'rtpcr' package is
user-friendly and easy to work with and provides an applicable
resource for analyzing real-time PCR data.