collapse: Data collapse of all concentrations into a single graph

In spikeLI: Affymetrix Spike-in Langmuir Isotherm Data Analysis Tool

Description

This function takes as input one or more (up to four) probe sets of the Latin square spike-in data and produces collapse plots. A collapse plot contains data of different concentrations into a single graph. The user can compare in how far the data follows the predicted Langmuir behavior which is also given in the plot. Two models are compared: the basic Langmuir Isotherm and the Langmuir Isotherm with hybridization in solution.

Usage

collapse(probe_set, param = "NULL", probes = "NULL", output = "NULL", filename = "NULL")

Arguments

probe_set	This has to take the value of a probe set
param	In input one or more probe sets can be given
probes	A vector containing the probes
output	"PS" output on a postscript file
filename	the file in which collapses are given

Author(s)

Delphine Baillon, Paul Leclercq, Sarah Ternisien, Thomas Heim and Enrico Carlon

References

E. Carlon and T. Heim, Physica A 362, 433 (2006).

See Also

Ivsc, IvsDG, hgu, SPIKE_IN, SPIKE_INA, SPIKE_INB, SPIKE_INH

Examples

## You may display the matched intensities of a Probe-Set according to the Delta-G value
     collapse("1091_at")

## You may restrict the value to the Perfect match or mis-matches
     collapse("1091_at","PM")

## You may restrict the values risplayed for only a number of probes
     collapse("1091_at",probes=c(1,9))

## You may output the graphs to a postscript file
     collapse("1091_at",output="PS",filename="outfile.ps")

## You may display up to 4 probe-sets in the same window
     collapse(c("1091_at","37777_at",SPIKE_INA[1:2]))

## You can also use the values of the probe-sets contained in one of the Vectors of Human, Bacteria, 
## or Artificial Probe-sets
     collapse(SPIKE_INH)

spikeLI documentation built on Nov. 8, 2020, 5:54 p.m.