AICc |
Akaike's second-order corrected Information Criterion for small sample sizes |
akaike.weights |
Calculation of Akaike weights/relative likelihoods/delta-AICs |
calib |
Calculation of qPCR efficiency by dilution curve analysis |
calib2 |
Calculation of qPCR efficiency by dilution curve analysis and an iterative search of the optimal threshold border |
confband |
Confidence bands for a sigmoidal fit |
curvemean |
Building a model which averages a batch of qPCR curves |
Cy0 |
Cy0 alternative to crossing points/threshold cycles as in Guescini et al |
drmfit |
The drm fitting engine, replicated to the qpcR package |
eff |
The amplification efficiency curve of a fitted object |
efficiency |
Calculation of qPCR efficiency and several other important qPCR parameters |
evidence |
Evidence ratio for model comparison with AIC or AICc |
expcomp |
Comparison of several sigmodal models by RMSE within the exponential region |
expfit |
Calculation of PCR efficiency by fitting an exponential model |
guescini1 |
A qPCR dilution experiment with replicates (Lightcycler 480) from Guescini et al |
guescini2 |
A qPCR experiment with replicates and simulated inhibition (Lightcycler 480) from Guescini et al |
LR |
Calculation of likelihood ratios for nested models |
maxRatio |
The maxRatio method as in Shain et al |
mchoice |
Selection of the best model by nested F-tests/likelihood ratios/Akaike weights |
modlist |
Create nonlinear models from a dataframe and coerce them into a list |
pcrbatch |
Batch calculation of qPCR efficiency and several other important qPCR parameters with different methods |
pcrfit |
Simple wrapper function for fast model fitting |
pcrGOF |
Summarize measures for the goodness-of-fit |
pcrimport |
Simple qPCR data import function (i.e. from text files or clipboard). |
pcropt1 |
Combinatorial elimination of plateau and ground phase cycles |
pcrplot |
Plotting PCR data with fitted curves |
pcrpred |
Value prediction from a fitted sigmoidal model |
PRESS |
Allen's PRESS (Prediction Sum-Of-Squares) statistic |
propagate |
General error propagation function using covariates and Monte Carlo simulations |
ratiocalc |
Calculation of ratios/propagated errors/t-statistics for all permutations/combinations of qPCR runs with or without reference data |
ratioplot |
Plot method for data of class 'ratiocalc' which displays barplots of ratios with error bars |
repform |
Formatting of PCR data with or without replicates for analysis |
reps |
qPCR dilution experiment with replicates (Roche Lightcycler) |
reps2 |
Another qPCR dilution experiment with replicates (Roche Lightcycler) |
reps3 |
A qPCR dilution experiment with replicates (Stratagene MXPro3000P) |
residplot |
A residuals bar-plot with colour-coded bars |
REST |
qpcR implementation of the popular REST software |
resVar |
Residual variance of a fitted model |
RMSE |
Root-mean-squared-error of a fitted model |
Rsq |
R-square value of a fitted model |
RSS |
Residual sum-of-squares of a fitted model |
rutledge |
qPCR dilution experiment with replicates and different runs from Rutledge et al (Biorad Opticon) |
S27 |
PCR data from 15 different testicular biopsies (Roche Lightcycler) |
sliwin |
Calculation of PCR efficiency by the window-of-linearity method |