ecdfplot               package:flowViz               R Documentation

_M_e_t_h_o_d _i_m_p_l_e_m_e_n_t_i_n_g _L_a_t_t_i_c_e _E_C_D_F _p_l_o_t_s _f_o_r _f_l_o_w _d_a_t_a

_D_e_s_c_r_i_p_t_i_o_n:

     This function creates Trellis displays of Empirical Cumulative
     Distribution Functions from flow cytometry data using a formula
     interface.

_U_s_a_g_e:

     ## methods for 'flowSet' objects

     ## S4 method for signature 'formula, flowSet':
     ecdfplot(x, data, xlab, ylab,
              f.value = function(n) ppoints(ceiling(sqrt(n))),
              type = "l", as.table = TRUE,
              ...)

     prepanel.ecdfplot.flowset(x, frames, channel, 
                               f.value, ...)
     panel.ecdfplot.flowset(x, frames, channel,
                            f.value, ref = TRUE,
                            groups = NULL, subscripts,
                            col, col.points, pch, cex, 
                            alpha, col.line, lty, lwd, ...)

_A_r_g_u_m_e_n_t_s:

       x: a formula describing the structure of the plot and the
          variables to be used in the display.  For the prepanel and
          panel functions, a vector of names for the flow frames to be
          used in the panel. 

    data: a 'flowSet' object that serves as a source of data 

xlab, ylab: Labels for data axes, with suitable defaults taken from the
          formula 

 f.value: determines the number of points used in the plot 'ecdfplot'
          for details.  

    type: type of rendering; by default lines are drawn 

as.table: logical; whether to draw panels from top left 

     ref: logical; whether to add reference lines at 0 and 1 

  frames: environment containing frame-specific data 

 channel: expression involving names of columns in the data 

groups, subscripts: grouping variable, if specified, and subscripts
          indexing which frames are being used in the panel.  See
          'xyplot' for details.  

col, col.points, pch, cex, alpha, col.line, lty, lwd: vector of
          graphical parameters that are replicated for each group 

     ...: more arguments, usually passed on to the underlying lattice
          methods and the panel function. 

_M_e_t_h_o_d_s:



     _e_c_d_f_p_l_o_t 'signature(x = "formula", data = "flowSet")': plote
          empirical CDF for a given channel, with one or more samples
          per panel


_S_e_e _A_l_s_o:

     Not all standard lattice arguments will have the intended effect,
     but many should.  For a fuller description of possible arguments
     and their effects, consult documentation on lattice.

_E_x_a_m_p_l_e_s:

     data(GvHD)

     ecdfplot(~ `FSC-H` | Patient, GvHD, f.value = ppoints(100))

     ecdfplot(~ asinh(`FSC-H`) | Patient, GvHD,
              strip = strip.custom(strip.names = TRUE),
              ref = FALSE)

     ecdfplot(~ asinh(`FSC-H`) | Patient, GvHD, groups = Visit,
              strip = strip.custom(strip.names = TRUE),
              ref = FALSE, auto.key = list(columns = 4))

