1. Software ManualOnGRAPHER TM 7Perfect 2D and 3D Graphing Software for Scientists,Engineers & Business Professionals Introduction to Concentration and Isotopic data plotsSubmitted by:Anita ThapaliaDr Bridget Konter - Computer Application Class Fall 2008 University of Texas at El Paso

2. Table of Contents1.0 Introduction to Grapher12.0 Starting Grapher 22.1 Title Bar32.2 Toolbars 32.3 Menu Bar 32.4 Status Bar 32.5 Plot Window32.6 Worksheet Window 32.7 Managers 43.0 Customizing Managers 53.1 Property Inspector 53.2 Object Manager 63.3 Worksheet Manager74.0 Line/Scatter Plot84.1 Tutorial for Line/Scatter plots94.2 Editing Graphs 104.3 Saving Graphs125.0 Plotting Concentrations and Isotopic data136.0 Software Significance14 3. Anita Thapalia GEO 5215 Grapher manual1.0 Introduction to GrapherGrapher is a type of graphing software developed by Golden Software, Inc. It is auseful graphing package for scientists, engineers, business professionals, or anyone whoneeds to generate graphs quickly. Grapher is easy to use in creating a graph because theuser can choose a graph type by selecting the data files, and clicking the open button.There are seven different types of graphing styles created in Grapher as shown in Table 1.The default setting is quite satisfactory and you can customize tic mark spacing, ticlabels, axis labels, axis length, grid lines, a variety of symbols, line colors that add moreflexibility to the software.Table 1: Grapher plot typesLinear Bar Graphs Polar Graphs Specialty 3D aspect 3D XYZ Contour andGraphs Graphs Graphs Graphs Surface Maps Line plots Bar chartsPolar plots Box-whisker Ribbon/wall 3D line/scatterXY Contour (line/scatter)plots plots plotsData MapScatter plotsFloating bar Polar class Bubble plots Function plots3D classXY Contourcharts scatter plots scatter plotsGrid MapClass scatterHistograms Polar bar plots Hi-low-close Step plots 3D bar chartsXZ Contour plots graphs Data Map Step plotsCategory bar Polar function Pie chartsBar charts 3D floatingXZ Contourcharts plots bar chartsGrid MapFunctionRose diagrams Stiff plotsFloating bar 3D bubble plotsSurface plotschart Data Map Wind charts Ternary HistogramsSurface diagramsGrid MapVector plotsPie charts Surface Function MapThe cost of Grapher software is $349 which can be pre-viewed from the followingwebsite: https://secure.hosting4less.com/goldensoftware/secureorder.shtml. The full demoversion can be obtained from software order which includes all products. Users can alsodownloadfreedemos byregistrationatGoldenSoftwarewebsite athttps://www.goldensoftware.com/. I am creating professional quality graphs for my thesis worksusing this software.1 4. Anita Thapalia GEO 5215 Grapher manual Grapher is used quite often in the geologic sciences and it is beneficial for different fieldslike geochemistry, structural analysis, petrology, etc. Grapher can import a Microsoft Excel datasheet, add/make changes the datasheet, and plot the graphs without any modification in rows andcolumns, which is an improvement our other graphing software programs. 2.0 Starting Grapher The Grapher starts with a title bar, menu bar, tool bars (on the top of window), plotwindow (center part of window), worksheet manager, status bar (on the bottom of window), andmanagers (right part of window) as shown in Fig. 1.Fig. 1. Grapher user interface 2 5. Anita ThapaliaGEO 5215 Grapher manual2.1 Title Bar:The title bar displays the program name and the saved Grapher file name. In Fig. 1., it isshown as e.g. Grapher-Zn_isotope_final. The filename with astrik (*) indicates the file has beenmodified.2.2 Toolbars :The toolbar displays all of the Grapher tool buttons which are usually shortcuts to menucommands.2.3 Menu Bar:The menu bar lists the commands used to run Grapher.2.4 Status Bar: The status bar shows information about activities of Grapher. It has three sections. Theleft section displays selected objects such as Delta 66/64 Zn T in Fig. 1. The middle sectionshows the information of the cursor coordinates for both X and Y (in inches). You can covert toother unit system from File, choose Preferences/Default settings. The right section shows thedimensions of the selected objects.2.5 Plot Window:The plot window consists of graphs and graphics as shown in Fig. 1.2.6 Worksheet Window:The worksheet window is used to create or import data in the program. You can importExcel files by Selecting- All types in the file type and other different file in all recognized typesas shown in the Fig. 2. 3 6. Anita Thapalia GEO 5215Grapher manualFig. 2. Grapher import file types2.7Managers:Grapher contains four types of managers: object manager, property inspector, worksheetmanager, and the script manager. They are located under the Menu, then click on View andchoose Toolba rs/Managers (Fig. 3.).4 7. Anita Thapalia GEO 5215Grapher manualFig. 3. Grapher customizing Managers3.0 Customizing Managers:3.1 Property Inspector:The property inspector (Fig. 4.) lists all properties for a selected object in a plot. You canchange symbol, line, fill, plot, clipping, error bars (data if available), labels, tic marks andlabels, break axis, and grid lines depending upon the object on a plot selected. Informationabout object properties is available in the online help. You can uncheck the auto update box atthe bottom of the property inspector to cancel the immediate changes on the object properties.You can use Edit/Undo for cancelling any changes that are not appropriate for use in propertyinspector, if auto update is checked.5 8. Anita Thapalia GEO 5215Grapher manualFig. 4. Property Inspector3.2 Object ManagerThe object manager (Fig. 5) displays the hierarchical list of the objects in a Grapher plotwindow. You can display the property of an object in the property inspector by selecting it. Youcan click on + or - icon to expand or collapse the list, respectively. The display order ofobjects can be changed by selecting an object and dragging in a new position in the list withmouse. It can be done by using Arrange in the menu window. The selected objects can berenamed through Edit - Rename object from Menu command or by right clicking and choosingRename object. You can make the object invisible on the plot by clicking the Uncheck box inthe object manager. The object can be selected and deleted by using Delete key (Remember:You cannot delete an axis used by a plot until the plot is on screen).6 9. Anita ThapaliaGEO 5215Grapher manualFig. 5. Object Manager 3.3 Worksheet Manager The worksheet manager (Fig. 6.) in Grapher can be opened by using File/Open to open adata file in the worksheet window. You can directly type the data into a worksheet or copy datafrom other application and paste into a worksheet. You can also choose File/New to open a newworksheet. You can modify format, edit data, plot new graph, save and print the worksheet byclicking right on the first row of the worksheet data. You can perform some basic calculationschoosing the Data and then Statistics, by right clicking on the data cell (Fig. 7.). Grapher canplot data from more than one worksheet by adding different X and Y axes. The worksheetmanager allows viewing the multiple data files which can be displayed in a tabbed format. Youcan also see the multiple worksheets used in the plot by scrolling the worksheet in the propertymanager. 7 10. Anita Thapalia GEO 5215Grapher manualFig. 6. Worksheet ManagerFig. 7. Data modification in the Worksheet Manager 4.0 Line/Scatter Plot Line/Scatter type of plot can be used to plot most professional appearance for the publication purposes (Fig. 7 & 8). Grapher can easily accept data from more than one worksheet in the same plot. As an example, in Geochemistry, it is used for plotting concentrations vs. different steps of an experiment; concentration vs. depth of the various metals in given a constant depth. The different steps of an experiment are Total, Organic, Exchangeable, Fe-oxide fractions of the metals such as Zn, Cu, Fe, As, Pb, etc. can be plotted so efficiently with the corresponding depth (of the sediment core). 8 11. Anita ThapaliaGEO 5215 Grapher manual4.1 Tutorial for Line/Scatter plotsThe following steps will assist the user in creation of well labeled Line/Scatter plot forconcentration of metals vs. depth data for geochemical applications.1. Start Grapher and a blank plot window will open, along with a worksheet manager,property inspector and object manager windows (default). You can also start by openinga File, choose new, select plot and click ok. You can create graphs from the plot windowGraph menu, or with graph wizard, or from the worksheet or templates. Choose plottype line/scatter in the 2D graphs inside the Graph menu on the menu bar.2. After clicking line/scatter, the open worksheet window will pop open and you canimport an Excel data file or other data formats as shown in Fig. 2. You can import exceldata files directly by selecting the spreadsheet and click on open. There is no need tochange the rows and columns of data as the worksheet manager will display the sameformat as Excel does.3. By default, Grapher will choose X column and Y column in property inspector as columnB and column C respectively, from the worksheet to plot the data. You can change theposition of X and Y axes, shift the tic marks by clicking position on the Axis propertiesin Property Inspector.4. Now, go ahead and change the X column by scrolling down the column numberdisplaying the order of column list exactly as in the data sheet. You can choose yourdesired data column. As an example, Pb concentration column is selected as X axis 1.Same applies to the depth in Y column (Fig. 8.).5. After you specify the columns, if you wish to plot the different set of plots from the samecolumn, specify the worksheet rows in the property inspector. As an example, thedataset for Pb has been entered in the same column from different data under subheadingTotal, Organic, Exchangeable, Fe-oxide fractions. So, for the required plot such as TotalPb, you have to specify the first row and last row by changing to custom and plugging the9 12. Anita Thapalia GEO 5215Grapher manualnumber from worksheet. This way the user can plot the required set of data from onecolumn. If you add another plot with the Pb Organic concentrations data set, you have tospecify the worksheet rows keeping columns the same.6. Now add another set of data to the earlier plot. To add Pb Fe-oxide data in the same plot,you have to click on the plot area. After it ha s been selected, right click and choose addplot and select line/scatter plot on select plot type. After that, it will ask you to chooseaxes, click ok to add on the same X and Y axes of earlier plot. Then, an open worksheetwindow pops open and you can import another data set in the worksheet manger if youhave data in different files. Otherwise, you can choose the same file again.7. Upon completion, you can see a new line/scatter plot 2 added to the object manger withthe earlier X axis 1, Y axis 1 and line/scatter plot 1 under graph 1.8. Plot the desired data on X axis by specifying the X and Y column and worksheet rows.You can keep the constant depth and plot the different concentrations of Pb data.9. Follow the steps 7 to 9 to add another Pb dataset with respect to the same depth.4.2 Editing Graphs:Each plot has separate properties and the user can specify the data columns and rows,symbols, color, and line thickness by clicking on it and choosing from list of options and chartsin the property inspector for professional touch.1. The Plot tab allows you to change the worksheet, axes, data column and rows.2. The Symbol tab is very useful in changing appropriate symbol set and size, fill color.3. The Line tab allows manipulating the lines and their thicknesses.4. The Clipping tab helps with manipulating minimum and maximum data range for both Xand Y axes.5. Select axis and you can edit axis, gridlines, tick marks, tick labels, break axis and line.10 13. Anita ThapaliaGEO 5215Grapher manual6. You can add title by clicking on the Axis tab. It will allow labeling title with the TextEditor Box, all text functions are available. The position of the label can be customizedefficiently.7. You can add a plot title by clicking on A on the left side of screen, which opens up theText Editor Box.8. Select the plot and right click and choose add legend to add legend box. You canspecify name, font, and size of the legend box within the property inspector.9. You can add more than one plot in one page by opening new plot and then copy andpaste the plots of each metal to compare their concentrations as shown in Fig. 9. You canalso add graphics, lines, and symbol from the Draw on the Menu bar to illustrate data.Fig. 7. Worksheet for line/Scatter plot11 14. Anita ThapaliaGEO 5215Grapher manualPb Concentration (ppm) 0 200400 600 800 10000 10 20Depth (cm) 30ExchangeableOrganicFeOxide 40 Total Digestion 50Fig. 8. 2D Line/Scatter plot4.3 Saving GraphsAfter completion of all graphs in the plot window, you can save the graph to a Grapher file (.GRF) or a Grapher project file (.GP). These files save all the scaling, formatting, and parameters preserved in a file. Choose File/Save command to save and you can also Save As for earlier saved plot. You can export graphs in portable formats commonly used for other programs.12 15. Anita Thapalia GEO 5215 Grapher manualConcentration vs. Depth PlotPPM PPM PPM PPM0 20 40 60 80 0 1 2 3 0 200 400 600 800 0 200 400 600 800 1000 0 10Depth (cm) 20 30AsCu Zn Pb 40 50 Exchangeable Organic FeOxide Total DigestionFig. 9. Example for Multiple Line/Scatter plot 5.0 Plotting Concentrations and Isotopic data: Two different data sets of concentration and isotopic data are used in geochemistry to show the relationship between them. This type of line/scatter plot can be used to see the variation between two variables with respect to the constant Y axis. The user can follow the same procedure to make scatter/line plot for concentration data and axis by selecting the plot and right click on it. The add axis option allows the users to choose another X or Y axis and specify the position of the axis. Following the same procedure, you can able to plot the isotopic data. Data provided for isotopes have 2 sigma errors which can be plotted on the Error Bars tab in the property inspector. You can specify the bar length, color, and thickness as shown in the Fig. 9. 13 16. Anita Thapalia GEO 5215 Grapher manual Zn Sedimentation rate (MAR) vs Isotopic data 66Zn 00.2 0.4 2000 1950 Age 1900 Zn MAR 185066/64 ZnT 1800 010 2030 40 Zn MAR(g/cm2/yr)Fig. 10. Line/Scatter Plot for Concentration and Isotopes vs. Calculated Age 6.0 Software Significance This manual has provided users a start up guide for Grapher software. You can clearly visualize how much flexibility Grapher offers. Grapher is user friendly and the window is familiar to Surfer too (most users also use Surfer software). Users can plot polar, vector and bubble plots which are not available in all plotting software. There is no drawback for this software. It has a lot of functions for the graphs and each property specifications. The database 14 17. Anita ThapaliaGEO 5215 Grapher manualfile is same as Excel files which make the software handy rather than change the format of datafile. You can create fancy graphs within a fairly short amount of time. Diagrams/Plots usingthis software provide more free space in manuscripts and much more clarity in plotting andlocating points.Grapher is highly appreciated in the field of geochemistry; and users can manipulate theirdata from other disciplines with this guide. This software is quick and fun to learn and onlinehelp is easy to understand at http:// www.goldensoftware.com. The wide applicability ofGrapher really helps users to explore and utilize datasets in their own fields. It is worthlearning.15