plot_comb_sims: Plot the simulation time courses using a heatmap...

In pdp10/sbpiper: Data Analysis Functions for 'SBpipe' Package

Description

Plot the simulation time courses using a heatmap representation.

Usage

plot_comb_sims(inputdir, outputdir, model, exp_dataset,
  plot_exp_dataset = FALSE, exp_dataset_alpha = 1, xaxis_label = "",
  yaxis_label = "", column_to_read = "X1", yaxis.min = NULL,
  yaxis.max = NULL)

Arguments

inputdir	the input directory containing the time course files
outputdir	the output directory
model	the model name
exp_dataset	a full path file containing the experimental data.
plot_exp_dataset	TRUE if the experimental data should also be plotted
exp_dataset_alpha	the alpha level for the data set
xaxis_label	the label for the x axis (e.g. Time (min))
yaxis_label	the label for the y axis (e.g. Level (a.u.))
column_to_read	the name of the column to process
yaxis.min	the lower limit for the y axis
yaxis.max	the upper limit for the y axis

Examples

data(insulin_receptor_IR_beta_pY1146)
data(insulin_receptor_exp_dataset)
dir.create(file.path("sim_datasets_sum"))
write.table(insulin_receptor_IR_beta_pY1146, 
            file=file.path("sim_datasets_sum","insulin_receptor_IR_beta_pY1146.csv"), 
            row.names=FALSE)
write.table(insulin_receptor_exp_dataset, 
            file="insulin_receptor_exp_dataset.csv", 
            row.names=FALSE)
plot_comb_sims(inputdir="sim_datasets_sum", 
               outputdir="sim_plots",
               model="insulin_receptor",
               exp_dataset="insulin_receptor_exp_dataset.csv",
               plot_exp_dataset=TRUE, 
               exp_dataset_alpha=1.0, 
               xaxis_label="Time [m]", 
               yaxis_label="Level [a.u.]", 
               column_to_read='IR_beta_pY1146', 
               yaxis.min=NULL, 
               yaxis.max=NULL)

pdp10/sbpiper documentation built on May 17, 2019, 11:17 p.m.