boxplot.pro
24.8 KB
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;+
; NAME:
; BOXPLOT
;
; PURPOSE:
;
; This is graphics routine to display a box plot, also known as a box and
; whisker plot, in IDL direct graphics. The box encloses the interquartile
; range (IQR), defined at IQR75-IQR25. The whiskers extend out to the maximum
; or minimum value of the data, or to the 1.5 times either the IQR75 or IQR25,
; if there is data beyond this range. Outliers are identified with small circles.
;
; AUTHOR:
;
; FANNING SOFTWARE CONSULTING
; David Fanning, Ph.D.
; 1645 Sheely Drive
; Fort Collins, CO 80526 USA
; Phone: 970-221-0438
; E-mail: david@idlcoyote.com
; Coyote's Guide to IDL Programming: http://www.idlcoyote.com
;
; CATEGORY:
;
; Graphics
;
; CALLING SEQUENCE:
;
; Boxplot, data
;
; REQUIRED INPUTS:
;
; data: A two-dimensional array. The data for each box plot will be in
; the columns of the data array. There will be one box plot drawn
; for each column in the data array. The maximum column size is 28.
;
; As an alternative, data can be a pointer array, in which case
; there will be one box plot drawn for each valid pointer in the array.
;
; INPUT KEYWORDS:
;
; ADDCMD: Set this keyword to add the command to the resizeable graphics window cgWindow.
;
; AXES_COLOR: A string color name, as appropriate for the FSC_COLOR program.
; By default, the same as the COLOR keyword. Used only if OVERPLOT
; keyword is not set.
;
; BACKGROUND_COLOR: A string color name, as appropriate for the FSC_COLOR program.
; By default, 'white'. Used only if OVERPLOT keyword is not set.
;
; BOXCOLOR: If FILLBOXES is set, the IQR box is filled with this color. By default, "ROSE".
;
; CHARSIZE: Set this to the character size to use on the plot. If undefined, uses
; the value of cgDefCharsize().
;
; COLOR: A string color name, as appropriate for the cgColor program.
; By default, 'charcoal'. The boxplot will be drawn in this color.
;
; FILLBOXES: Set this keyword to fill the IQR box with a color, specified by BOXCOLOR.
;
; LABELS: A string array of the same length as the number of columns of data.
; The boxplots will be labeled with these labels along the X axis.
; Used only if OVERPLOT keyword is not set.
;
; MISSING_DATA_VALUE: Set this keyword to a value that will be used to identify missing data.
; Missing data is not used in the calculations of the box plot.
;
; OVERPLOT: If this keyword is set, the boxplots will be overdrawn on the current
; set of axes. The X axis will be presumed to be scaled from 0 to 1 more
; than the number of columns in data.
;
; ROTATE: Set to a value between -90 and 90 degree. The labels will be rotated this
; amount. Positive values rotate in CCW fashion, negative values in CW fashion.
;
; WINDOW: Set this keyword to display the plot in a resizeable graphics window (cgWindow).
;
; Any other keywords (e.g., POSITION, XTITLE, YTITLE, etc.) that are appropriate for
; the PLOT command can be used with this procedure.
;
; OUTPUT KEYWORDS:
;
; STATS: Set this to a named variable that will return an array of structures
; for each of the columns of data. The structure will be defined as
; this:
;
; struct = { Median:0.0D, Mean: 0.0D, Min:0.0D, Max:0.0D, $
; Q25:0.0D, Q75:0.0D, IQR:0.0D, SDEV:0.0D, N:0L }
;
; Where "mean" is the median value of the data, "Q25" and "Q75" are the 25th percent
; quartile and 75th percent quartile of the data, repectively, "IRG" is the
; Interquartile Range, SDEV is the standard deviation, and N is the number of points
; used to construct the box plot.
;
; REQUIRES:
;
; Several program from the Coyote Library (http://www.idlcoyote.com/documents/programs.html)
; are required. Among them are these:
;
; ERROR_MESSAGE (http://www.idlcoyote.com/programs/error_message.pro)
; cgColor (http://www.idlcoyote.com/programs/cgColor.pro)
; SYMCAT (http://www.idlcoyote.com/programs/symcat.pro)
;
; EXAMPLE:
;
; Here is an example, using data from the Michaelson-Morley speed of light experiment,
; in which they made five experiments of 20 measurements of the speed of light each.
; The data can be downloaded from here:
;
; http://www.idlcoyote.com/misc/mm_data.dat
;
; Here are the IDL commands to read the data and produce a box plot of it.
;
; OpenR, 1, Find_Resource_File('mm_data.dat')
; header = Strarr(2)
; Readf, 1, header
; data = Intarr(5, 20)
; Readf, 1, data
; Close, 1
; Boxplot, data, XTITLE='Experiment Number', YTITLE='Speed of Light'
;
; An article about his program can be found here:
;
; http://www.idlcoyote.com/graphics_tips/box_whisker.html
;
; MODIFICATION HISTORY:
;
; Written by David W. Fanning, 4 March 2009.
; Added STATS keyword to return data statistics. 5 March 2009. DWF.
; Added MISSING_DATA_VALUE keyword to identify missing values. 14 March 2009. DWF.
; Removed limitation of LABELS array having no more than 28 elements. 14 March 2009. DWF.
; Made it possible to pass a pointer array containing the data, if desired. 14 March 2009. DWF.
; Added ROTATE keyword to rotate labels. 16 March 2009. DWF.
; Added several modifications to guard against ill-formed data in the BoxPlot_Draw
; procedure. 23 March 2009. DWF.
; Added keywords FILLBOXES and BOXCOLOR. 24 March 2009. DWF.
; Redefined the STATS structure to include MEAN and to store values as doubles. 25 March 2009. DWF.
; Fixed in a bug that resulted in incorrect behavior when the MISSING_DATA_VALUE keyword
; was used. 8 April 2009. DWF.
; Fixed a typo that didn't allow a single column vector to be displayed as a box plot. 17 May 2009. DWF.
; Now allow a single row vector to be passed into program and displayed. 20 May 2009. DWF.
; Added NOCLIP=0 keyword to PLOTS command when drawing outliers. 15 July 2009. DWF.
; Minor adjustment of the X axis label position. 28 October 2010. DWF.
; Add the ability to change the label character size and thickness via the normal
; XCHARSIZE and XTHICK keywords you would use for a plot. 3 Dec 2010. DWF.
; Fixed a couple of typos, added ADDCMD, CHARSIZE, LAYOUT and WINDOW keywords. 2 Feb 2011. DWF.
;-
;******************************************************************************************;
; Copyright (c) 2009, by Fanning Software Consulting, Inc. ;
; All rights reserved. ;
; ;
; Redistribution and use in source and binary forms, with or without ;
; modification, are permitted provided that the following conditions are met: ;
; ;
; * Redistributions of source code must retain the above copyright ;
; notice, this list of conditions and the following disclaimer. ;
; * Redistributions in binary form must reproduce the above copyright ;
; notice, this list of conditions and the following disclaimer in the ;
; documentation and/or other materials provided with the distribution. ;
; * Neither the name of Fanning Software Consulting, Inc. nor the names of its ;
; contributors may be used to endorse or promote products derived from this ;
; software without specific prior written permission. ;
; ;
; THIS SOFTWARE IS PROVIDED BY FANNING SOFTWARE CONSULTING, INC. ''AS IS'' AND ANY ;
; EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES ;
; OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT ;
; SHALL FANNING SOFTWARE CONSULTING, INC. BE LIABLE FOR ANY DIRECT, INDIRECT, ;
; INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED ;
; TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; ;
; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ;
; ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT ;
; (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS ;
; SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. ;
;******************************************************************************************;
FUNCTION BoxPlot_Prepare_Data, data, missing_data_value
; If there is no missing_data_value, then just return the data.
IF N_Elements(missing_data_value) NE 0 THEN BEGIN
; If the missing_data_value is a number (as opposed to NAN), then we will find
; the missing values and change them to !VALUES.F_NAN for futher processing.
; If the missing_data_value is a NAN, then we just return the data, since it
; is already set up the way it needs to be. We *may* have to convert the data
; to floating type to do this.
IF Finite(missing_data_value) EQ 1 THEN BEGIN
dataTypeName = Size(missing_data_value, /TNAME)
CASE dataTypeName OF
'FLOAT': BEGIN
epsilon = (MACHAR()).eps
indices = Where( Abs(data - missing_data_value) LE epsilon, count)
END
'DOUBLE': BEGIN
epsilon = (MACHAR(DOUBLE=1)).eps
indices = Where( Abs(data - missing_data_value) LE epsilon, count)
END
ELSE: BEGIN
indices = Where(data EQ missing_data_value, count)
END
ENDCASE
thisData = data
; If you found indices, then convert to !VALUES.F_NAN
IF count GT 0 THEN BEGIN
CASE Size(data, /TNAME) OF
'FLOAT': thisData[indices] = !VALUES.F_NAN
'DOUBLE': thisData[indices] = !VALUES.D_NAN
ELSE: BEGIN
thisData = Float(data)
thisData[indices] = !VALUES.F_NAN
END
ENDCASE
ENDIF
RETURN, thisData
ENDIF ELSE RETURN, data
ENDIF ELSE RETURN, data
END ; ---------------------------------------------------------------------------------
PRO BoxPlot_Draw, thisdata, $
BOXCOLOR=boxcolor, $
COLOR=color, $
FILLBOXES=fillboxes, $
WIDTH=width, $
XLOCATION=xlocation, $
STATS=stats
On_Error, 1
; Check the parameters.
IF N_Elements(thisdata) EQ 0 THEN Message, 'Data vector is undefined.'
IF N_Elements(boxcolor) EQ 0 THEN boxcolor = 'ROSE'
IF N_Elements(color) EQ 0 THEN color = 'WHITE'
fillboxes = Keyword_Set(fillboxes)
IF N_Elements(xlocation) EQ 0 THEN xlocation = (!X.CRange[1] - !X.Crange[0]) / 2 + Min(!X.CRange)
IF N_Elements(width) EQ 0 THEN width = (!X.CRange[1] - !X.Crange[0]) * 0.05
data = thisData
; Only work with numbers, no NANs.
indices = Where(Finite(data) EQ 1, count)
IF count NE N_Elements(data) THEN data = data[indices]
; Find min, max, mean, and median values.
minData = MIN(data, MAX=maxData, /NAN)
stats.min = minData
stats.max = maxData
stats.mean = Mean(data, /NAN, /DOUBLE)
stats.median = Median(data, /EVEN, /DOUBLE)
; How many points are going to be used to draw the box plot?
; Make sure you have some.
stats.n = N_Elements(data)
IF stats.n EQ 0 THEN RETURN
; If the min is equal to the max, then draw a line and out of here.
IF (stats.min EQ stats.max) THEN BEGIN
stats.q25 = stats.median
stats.q75 = stats.median
stats.iqr = 0
stats.sdev = 0
halfwidth = width / 2.0
x1 = xlocation - halfwidth
x2 = xlocation + halfwidth
PLOTS, [x1, x2], [stats.median, stats.median], COLOR=cgColor(color)
RETURN
ENDIF
; Sort the data.
sortedData = data[Sort(data)]
IF N_Elements(sortedData) MOD 2 EQ 0 THEN BEGIN
index = N_Elements(sortedData)/2
medianData = (sortedData[index-1] + sortedData[index]) / 2.0
lowerGroup = sortedData[0:index-1]
higherGroup = sortedData[index:N_Elements(data)-1]
ENDIF ELSE BEGIN ; The middle point belongs to both upper and lower quartiles.
index = N_Elements(sortedData)/2
medianData = sortedData[index]
lowerGroup = sortedData[0:index]
higherGroup = sortedData[index:N_Elements(data)-1]
ENDELSE
stats.median = medianData
; Find the quartiles.
quartile_25 = Median(lowerGroup, /EVEN)
quartile_75 = Median(higherGroup, /EVEN)
stats.q25 = quartile_25
stats.q75 = quartile_75
; Calculate IQR
iqr = quartile_75 - quartile_25
stats.iqr = iqr
stats.sdev = StDDev(data, /NAN, /DOUBLE)
; Color decomposition on, if allowed.
IF (!D.Flags AND 256) NE 0 THEN BEGIN
Device, Get_Visual_Depth=theDepth
IF theDepth GE 24 THEN Device, Decomposed=1, Get_Decomposed=theState
ENDIF
; Draw the box.
halfwidth = width / 2.0
x1 = xlocation - halfwidth
x2 = xlocation + halfwidth
y1 = quartile_25
y2 = quartile_75
IF fillboxes THEN POLYFILL, [x1,x1,x2,x2,x1], [y1,y2,y2,y1,y1], COLOR=cgColor(boxcolor)
PLOTS, [x1,x1,x2,x2,x1], [y1,y2,y2,y1,y1], COLOR=cgColor(color)
PLOTS, [x1, x2], [medianData, medianData], COLOR=cgColor(color)
; Are there any data greater than 1.5*iqr
imax = Where(data GT quartile_75 + (1.5 * iqr), maxcount)
IF maxcount EQ 0 THEN BEGIN
top = maxData
ENDIF ELSE BEGIN
index = Value_Locate(sortedData, quartile_75 + (1.5 * iqr))
top = sortedData[0 > (index) < (N_Elements(data)-1)]
ENDELSE
; Are there any data less than 1.5*iqr
imin = Where(data LT quartile_25 - (1.5 * iqr), mincount)
IF mincount EQ 0 THEN BEGIN
bottom = minData
ENDIF ELSE BEGIN
index = Value_Locate(sortedData, quartile_25 - (1.5 * iqr))
bottom = sortedData[0 > (index+1) < (N_Elements(data)-1)]
ENDELSE
; Draw the whiskers.
PLOTS, [xlocation, xlocation], [quartile_75, top], COLOR=cgColor(color)
PLOTS, [xlocation, xlocation], [quartile_25, bottom], COLOR=cgColor(color)
PLOTS, [xlocation - (halfwidth*0.5), xlocation + (halfwidth*0.5)], $
[top, top], COLOR=cgColor(color)
PLOTS, [xlocation - (halfwidth*0.5), xlocation + (halfwidth*0.5)], $
[bottom, bottom], COLOR=cgColor(color)
; Draw outliners if there are any.
IF maxcount GT 0 THEN BEGIN
FOR j=0,maxcount-1 DO PLOTS, xlocation, data[imax[j]], $
PSYM=SymCat(9), COLOR=cgColor(color), NOCLIP=0
ENDIF
IF mincount GT 0 THEN BEGIN
FOR j=0,mincount-1 DO PLOTS, xlocation, data[imin[j]], $
PSYM=SymCat(9), COLOR=cgColor(color), NOCLIP=0
ENDIF
IF N_Elements(theState) NE 0 THEN Device, Decomposed=theState
END ;-----------------------------------------------------------------------------------------------------
PRO BoxPlot, data, $
ADDCMD=addcmd, $
AXES_COLOR=axes_color, $
BACKGROUND_COLOR=background_color, $
BOXCOLOR=boxcolor, $
CHARSIZE=charsize, $
COLOR=color, $
FILLBOXES=fillboxes, $
LABELS=labels, $
LAYOUT=layout, $
MISSING_DATA_VALUE=missing_data_value, $
OVERPLOT=overplot, $
ROTATE=rotate, $
STATS=stats, $
XCHARSIZE=xcharsize, $
XTHICK=xthick, $
WINDOW=window, $
_EXTRA=extra
; Error handling.
Catch, theError
IF theError NE 0 THEN BEGIN
Catch, /CANCEL
void = Error_Message()
IF N_Elements(theState) NE 0 THEN Device, Decomposed=theState
IF N_Elements(thisMulti) NE 0 THEN !P.Multi = thisMulti
RETURN
ENDIF
; Check parameters.
IF N_Params() EQ 0 THEN BEGIN
Print, 'USE SYNTAX: Boxplot, data'
RETURN
ENDIF
; Do they want this plot in a resizeable graphics window?
IF Keyword_Set(addcmd) THEN window = 1
IF Keyword_Set(window) AND ((!D.Flags AND 256) NE 0) THEN BEGIN
; If you are using a layout, you can't ever erase.
IF N_Elements(layout) NE 0 THEN noerase = 1
IF Keyword_Set(overplot) OR Keyword_Set(addcmd) THEN BEGIN
cgWindow, 'Boxplot', data, $
AXES_COLOR=axes_color, $
BACKGROUND_COLOR=background_color, $
BOXCOLOR=boxcolor, $
CHARSIZE=charsize, $
COLOR=color, $
FILLBOXES=fillboxes, $
LABELS=labels, $
MISSING_DATA_VALUE=missing_data_value, $
OVERPLOT=overplot, $
ROTATE=rotate, $
STATS=stats, $
XCHARSIZE=xcharsize, $
XTHICK=xthick, $
ADDCMD=1, $
_Extra=extra
RETURN
ENDIF
currentWindow = cgQuery(/CURRENT, COUNT=wincnt)
IF wincnt EQ 0 THEN replaceCmd = 0 ELSE replaceCmd=1
cgWindow, 'Boxplot', data, $
AXES_COLOR=axes_color, $
BACKGROUND_COLOR=background_color, $
BOXCOLOR=boxcolor, $
CHARSIZE=charsize, $
COLOR=color, $
FILLBOXES=fillboxes, $
LABELS=labels, $
MISSING_DATA_VALUE=missing_data_value, $
OVERPLOT=overplot, $
ROTATE=rotate, $
STATS=stats, $
XCHARSIZE=xcharsize, $
XTHICK=xthick, $
REPLACECMD=replaceCmd, $
_Extra=extra
RETURN
ENDIF
; Pay attention to !P.Noerase in setting the NOERASE kewyord. This must be
; done BEFORE checking the LAYOUT properties.
IF !P.NoErase NE 0 THEN noerase = !P.NoErase ELSE noerase = Keyword_Set(noerase)
; Set up the layout, if necessary.
IF N_Elements(layout) NE 0 THEN BEGIN
thisMulti = !P.Multi
totalPlots = layout[0]*layout[1]
!P.Multi = [0,layout[0], layout[1], 0, 0]
IF layout[2] EQ 1 THEN BEGIN
noerase = 1
!P.Multi[0] = 0
ENDIF ELSE BEGIN
!P.Multi[0] = totalPlots - layout[2] + 1
ENDELSE
ENDIF
; Arguments and keywords.
IF N_Elements(color) EQ 0 THEN color = 'Charcoal'
IF N_Elements(axes_color) EQ 0 THEN axes_color = color
IF N_Elements(background_color) EQ 0 THEN background_color = 'white'
IF N_Elements(charsize) EQ 0 THEN charsize = cgDefCharsize()
IF N_Elements(xcharsize) EQ 0 THEN xcharsize = charsize * 0.75
IF N_Elements(boxcolor) EQ 0 THEN boxcolor = 'rose'
fillboxes = Keyword_Set(fillboxes)
IF N_Elements(rotate) EQ 0 THEN rotate = 0
rotate = -90 > Fix(rotate) < 90
overplot = Keyword_Set(overplot)
isRowVector = 0
passedDataType = Size(data, /TNAME)
; How many box plots are there?
IF passedDataType EQ 'POINTER' THEN BEGIN
numbox = N_Elements(data)
*data[0] = Boxplot_Prepare_Data(*data[0], missing_data_value)
minData = Min(*data[0], Max=maxData, /NAN)
IF numbox GT 1 THEN BEGIN
FOR j=1,numbox-1 DO BEGIN
*data[j] = Boxplot_Prepare_Data(*data[j], missing_data_value)
minptr = Min(*data[j], Max=maxptr, /NAN)
minData = Min([mindata, minptr], /NAN)
maxData = Max([maxdata, maxptr], /NAN)
ENDFOR
ENDIF
ENDIF ELSE BEGIN
ndims = Size(data, /N_DIMENSIONS)
IF ndims EQ 1 THEN BEGIN
numbox = 1
IF N_Elements(data) GT 1 THEN isRowVector = 1 ELSE Message, 'Input data must be a vector.'
ENDIF ELSE BEGIN
IF ndims GT 2 THEN Message, 'Cannot work with multi-dimensional data.'
s = Size(data, /DIMENSIONS)
numbox = s[0]
ENDELSE
thisData = Boxplot_Prepare_Data(data, missing_data_value)
minData = Min(thisData, Max=maxData, /NAN)
ENDELSE
; If you are not overplotting, then draw a plot for the box plots.
IF ~overplot THEN BEGIN
rr = maxData - minData
minData = minData - (0.05 * Abs(rr))
maxData = maxData + (0.05 * Abs(rr))
yrange = [minData, maxData]
xrange = [0, numbox + 1]
IF N_Elements(labels) EQ 0 THEN BEGIN
plotlabels = [' ', StrCompress(String(Indgen(numbox) + 1), /REMOVE_ALL), ' ']
ENDIF ELSE BEGIN
plotlabels = [' ', labels, ' ']
ENDELSE
IF (!D.Flags AND 256) NE 0 THEN BEGIN
Device, Get_Visual_Depth=theDepth
IF theDepth GE 24 THEN Device, Decomposed=1, Get_Decomposed=theState
ENDIF
Plot, xrange, yrange, /NODATA, _STRICT_EXTRA=extra, $
XMINOR=1, XTICKS=numbox+1, YSTYLE=1, BACKGROUND=cgColor(background_color), $
COLOR=cgColor(axes_color), XTICK_GET=xloc, XTICKFORMAT='(A1)', $
XCHARSIZE=xcharsize, XTHICK=xthick, CHARSIZE=charsize
; Put the labels on the plots.
CASE 1 OF
(rotate EQ 0): alignment = 0.5
(rotate GT 0) AND (rotate LE 45): alignment = 1.0
(rotate LT 0) AND (rotate GE -45): alignment = 0.0
(rotate EQ 90): alignment = 1.0
(rotate EQ -90): alignment = 0.0
ELSE: alignment = 0.5
ENDCASE
FOR j=1,numbox DO BEGIN
xy = Convert_Coord(xloc[j], !Y.CRange[0], /DATA, /TO_NORMAL)
chary = !D.Y_CH_SIZE / Float(!D.Y_Size) * charsize
XYOUTS, xy[0], xy[1] - (1.5 * chary), /NORMAL, plotlabels[j], $
ALIGNMENT=alignment, COLOR=cgColor(axes_color), $
ORIENTATION=rotate, CHARSIZE=charsize, CHARTHICK=xthick
ENDFOR
IF N_Elements(theState) NE 0 THEN Device, Decomposed=theState
ENDIF
; Draw the boxes.
width = ((!X.CRange[1] - !X.Crange[0]) / (numbox+2.0)) * 0.9
s = { Median:0.0D, Mean: 0.0D, Min:0.0D, Max:0.0D, $
Q25:0.0D, Q75:0.0D, IQR:0.0D, SDEV:0.0D, N:0L }
IF Arg_Present(stats) THEN stats = Replicate(s, numbox)
FOR j=1,numbox DO BEGIN
IF passedDataType EQ 'POINTER' THEN BEGIN
dataToBox = BoxPlot_Prepare_Data(*data[j-1], missing_data_value)
ENDIF ELSE BEGIN
IF numBox GE 1 THEN BEGIN
IF isRowVector THEN dataToBox = thisData ELSE dataToBox = Reform(thisData[j-1,*])
ENDIF
ENDELSE
BoxPlot_Draw, dataToBox, COLOR=color, BOXCOLOR=boxcolor, FILLBOXES=fillboxes, $
WIDTH=width, XLOCATION=j, STATS=s
IF Arg_Present(stats) THEN stats[j-1] = s
ENDFOR
; Clean up.
IF N_Elements(thisMulti) NE 0 THEN !P.Multi = thisMulti
END ;-----------------------------------------------------------------------------------------------------