summat2D: Summarize matrices

In qtlc: Densitometric Analysis of Thin-Layer Chromatography Plates

Description

The function summarize matrices areas of the located spot matrices.

Usage

summat2D(object)

Arguments

object

S3 object of working TLC

Value

Returns S3 object with new values object$spot_sums.

Author(s)

Ivan D. Pavicevic, [e-mail]

Examples

# This interactive example shows the most
# common usage of the qtlc library.
fname01 <- system.file("extdata", "test025to100sp.tiff", package="qtlc")
testTLC <- createTLC(fname01, RGB=FALSE)
print(testTLC)

# now using mouse select the spots with testTLC <- spot2D(testTLC)
# but, for automatic tests, we'll imitate that step...
testTLC$spots$x <- c(40.93354, 83.18687, 121.59899, 160.01111, 203.54485,
                     239.39616, 280.36909, 320.06161, 362.31494, 399.44666,
                     439.13919, 480.11211, 518.52423, 559.49716, 599.18969)
testTLC$spots$y <- c(198.3160, 198.3160, 199.2833, 198.3160, 198.3160,
                     198.3160, 198.3160, 198.3160, 197.3487, 198.3160,
                     199.2833, 198.3160, 199.2833, 199.2833, 199.2833)

# and now the select2D selects 30x30 pixels areas around spots
testTLC <- select2D(testTLC, 30, 30)

# forming spots matrices
testTLC <- matrices2D(testTLC)

# and finaly sumarizing spots areas
testTLC <- summat2D(testTLC)

#eventually we'll examine the linear model
C <- rep(c(0.25, 1, 6.25, 25, 100), each=3) #imaginative concentrations
#now creates data frame with values
testTLC.df <- data.frame(C, testTLC$spot_sums)
names(testTLC.df) <- c("Concentration", "Signal")
# now the linear model
testTLC.lm <- with(testTLC.df, lm(Signal ~ Concentration))
# and finaly the plot
plot(testTLC.df)
abline(testTLC.lm)
summary(testTLC.lm)

qtlc documentation built on May 1, 2019, 8:45 p.m.