flowPlot               package:flowViz               R Documentation

_S_t_a_n_d_a_r_d _P_l_o_t_s _f_o_r _F_l_o_w _C_y_t_o_m_e_t_r_y _D_a_t_a

_D_e_s_c_r_i_p_t_i_o_n:

     A method that makes standard plots from a 'flowFrame'. The user
     may also provide various 'filter' or 'filterResult' arguments to
     customize the plot.

_U_s_a_g_e:

     flowPlot(x, ...)

     ## S4 method for signature 'flowFrame':
     flowPlot(x, child, filter = NULL,
              plotParameters = c("FSC-H","SSC-H"),
              logx = FALSE, logy = FALSE,
              parent, colParent="Grey", colChild="Blue",
              showFilter = TRUE, gate.fill = "transparent",
              gate.border = "black", xlab, ylab, xlim, ylim,
              ...)

_A_r_g_u_m_e_n_t_s:

       x: An object of class 'flowFrame' that contains the data to be
          plotted.

   child: An optional argument of class 'filterResult' that specifies a
          subset of the data that are included in the 'filterResult'

  filter: 

plotParameters: 

    logx: 

    logy: 

  parent: 

colParent: 

colChild: 

showFilter: 

gate.fill: 

gate.border: 

    xlab: 

    ylab: 

    xlim: 

    ylim: 

     ...: 

_D_e_t_a_i_l_s:

     The plot that is most commonly used in flow cytometry data
     analysis is usuall called a "dot plot". In common statistical
     language, we would call this a scatter plot. The basic idea is a
     2-dimensional plot that shows the location of every cell in regard
     to the measurements made on it, for example, forward scatter vs
     side scatter. Most applications will, in addition to the data,
     want to show information about one or more filters (gates). Since
     there can be a very large number of cells in a sample, it is
     common to show a smoothed version of the data that doesn't involve
     registering every point on the graph.

_A_u_t_h_o_r(_s):

     P. Haaland

_S_e_e _A_l_s_o:

     'flowCore'

_E_x_a_m_p_l_e_s:

     data(GvHD)
     flowPlot(GvHD[["s5a01"]])
     flowPlot(transform("SSC-H"=asinh,"FSC-H"=asinh) %on% GvHD[["s5a01"]])

