pt3c: Fluorescence curves for PT3 expression at phosphate...

In daniel-gerhard/qpcrnlme: Nonlinear mixed model analysis of RT-PCR data

Description

RT-PCR analysis of the phosphate transporter PT3 in rice at several time periods of phosphate deficiency.

Usage

data(pt3c)

Format

A data frame with 3600 observations on the following 6 variables.

Cycle

cycle number

Fluorescence

observed fluorescence (proportional to PCR material)

Well

a factor with well IDs

Content

factor levels denoting biological replicates

Time

0,2,4,6, and 8 hours in a nutrient solution at low phosphate content

Target

2 different genes PT3 and eEf (control)

Author(s)

Melanie Bremer <[e-mail]>

Examples

data(pt3c)
ggplot(pt3c, aes(x=Cycle, y=Fluorescence, colour=Time, group=Well)) +
geom_line()

## Not run: 
pt3c$Time <- as.factor(pt3c$Time)
pt3result <- qpcr_nlme(response="Fluorescence", cycle="Cycle",
                       gene="Target", treatment="Time", brep="Content", 
                       well="Well", data=pt3c, cutoff=100, verbose=TRUE)
ddctcomp(pt3result, control_gene="eEf", control_treatment="0", 
         conf.level=0.95, adjusted=TRUE, ratio_ddct=TRUE)

## End(Not run)

daniel-gerhard/qpcrnlme documentation built on May 14, 2019, 3:39 p.m.