plot_signature_curves: plot_signature_curves

In coda4microbiome: Compositional Data Analysis for Microbiome Studies

plot_signature_curves

Description

Graphical representation of the signature trajectories

Usage

plot_signature_curves(
  varNum,
  coeff,
  x,
  y,
  x_time,
  subject_id,
  ini_time,
  end_time,
  color = c("chocolate1", "slateblue2"),
  showLabel = TRUE,
  location = "bottomright",
  inset = c(0.01, 0.02),
  cex = 0.8,
  y.intersp = 0.7,
  main_title = NULL
)

Arguments

varNum	column number of the variables (taxa)
coeff	coefficients (coefficients must sum-up zero)
x	microbiome abundance matrix in long format
y	binary outcome; data type: numeric, character or factor vector
x_time	observation times
subject_id	subject id
ini_time	initial time to be analyzed
end_time	end time to be analyzed
color	color graphical parameter
showLabel	graphical parameter (see help(label))
location	graphical parameter (see help(label))
inset	graphical parameter (see help(label))
cex	graphical parameter (see help(label))
y.intersp	graphical parameter (see help(label))
main_title	title plot

Value

trajectories plot

Author(s)

M. Calle - T. Susin

Examples

x=matrix(c(2, 3, 4, 1, 2, 5, 10, 20, 15, 30, 40, 12), ncol=2)
x_time = c(0,10,20,1,15, 25)
subject_id = c(1,1,1,2,2,2)
y=c(0,0,0,1,1,1)
plot_signature_curves(varNum=c(1,2), coeff=c(1,-1), x, y,x_time, subject_id,
                       ini_time=0, end_time=25)

coda4microbiome documentation built on Sept. 11, 2024, 8 p.m.