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batsch

CRAN status R-CMD-check

{batsch} provides real-time PCR data sets by Batsch et al. (2008) in tidy format. There are five data sets bundled with this package, one for each PCR target:

Each data set comprises a five-point, four-fold dilution series. For each concentration there are three replicates. Each amplification curve is 45 cycles long.

Installation

Install {batsch} from CRAN:

# Install from CRAN
install.packages("batsch")

You can instead install the development version of {batsch} from GitHub:

# install.packages("remotes")
remotes::install_github("ramiromagno/batsch")

Usage

Rat SLC6A14

library(batsch)

SLC6A14r |>
  ggplot(mapping = aes(
    x = cycle,
    y = fluor,
    group = interaction(dilution, replicate),
    col = as.factor(dilution)
  )) +
  geom_line(linewidth = 0.5) +
  labs(y = "Raw fluorescence", colour = "Dilution factor", title = "Rat SLC6A14") +
  guides(color = guide_legend(override.aes = list(size = 0.5)))

Human SLC22A13

SLC22A13h |>
  ggplot(mapping = aes(
    x = cycle,
    y = fluor,
    group = interaction(dilution, replicate),
    col = as.factor(dilution)
  )) +
  geom_line(linewidth = 0.5) +
  labs(y = "Raw fluorescence", colour = "Dilution factor", title = "Human SLC22A13") +
  guides(color = guide_legend(override.aes = list(size = 0.5)))

Pig EMT

EMTp |>
  ggplot(mapping = aes(
    x = cycle,
    y = fluor,
    group = interaction(dilution, replicate),
    col = as.factor(dilution)
  )) +
  geom_line(linewidth = 0.5) +
  labs(y = "Raw fluorescence", colour = "Dilution factor", title = "Pig EMT") +
  guides(color = guide_legend(override.aes = list(size = 0.5)))

Chicken ETT

ETTch |>
  ggplot(mapping = aes(
    x = cycle,
    y = fluor,
    group = interaction(dilution, replicate),
    col = as.factor(dilution)
  )) +
  geom_line(linewidth = 0.5) +
  labs(y = "Raw fluorescence", colour = "Dilution factor", title = "Chicken ETT") +
  guides(color = guide_legend(override.aes = list(size = 0.5)))

Human GAPDH

GAPDHh |>
  ggplot(mapping = aes(
    x = cycle,
    y = fluor,
    group = interaction(dilution, replicate),
    col = as.factor(dilution)
  )) +
  geom_line(linewidth = 0.5) +
  labs(y = "Raw fluorescence", colour = "Dilution factor", title = "Human GAPDH") +
  guides(color = guide_legend(override.aes = list(size = 0.5)))

Code of Conduct

Please note that the {batsch} project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.

References

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.