The following table lists the parameters in the Histogram view dialog box.
Command or option | Description |
|---|---|
Options pane | |
| Loads the Option pane settings that you saved with the Save command. |
| Saves the settings that you selected in the Options pane.
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| Resets the option settings in the Options pane to their defaults when you installed the application. |
Chart Options | |
Chart Type | Determines how the application plots the data.
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Show Cumulative | Determines whether to display a cumulative histogram, for comparing distribution curves. For these charts, the application calculates the column height as the height of the current column plus the sum of all previous columns. The rightmost column height is therefore the total count or 100%, depending on the y axis settings.
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Horizontal Grid Lines | Determines whether the histogram displays horizontal grid lines and specifies the style of these lines.
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Vertical Grid Lines | Determines whether the histogram displays vertical grid lines and specifies the style of these lines.
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Column Options | |
Show Column Amount | Determines whether the amount, or count of items, is displayed in the chart.
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Show Percentages | Determines whether percentage values are displayed above the columns or to the right of the bars.
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Column Display | Specifies the appearance of the columns or bars.
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Column Width | Specifies the relative width of the columns as a fraction between 0 and 1. Default: 0.8 |
Column Label Font | Specifies the font of the column labels that appear on top of the bars in the histogram. These labels are visible if you set the Show Column Amount parameter to True. The Column Label parameter opens the Font dialog box. See also Font dialog box. in the Proteome Discoverer Help. Default: 8-point Arial |
Axis Options | |
X-Axis Number Format | Specifies the notation of the numbers used for the x axis.
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X-Axis Title | Specifies the label for the x axis. Default: The category selected from the Data Source list. |
Y Axis Type | Specifies the axis type (scale) of the x axis.
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Y-Axis Title | Specifies the label for the y axis. Default: Count |
Reduce Number of Axis Labels | Determines whether the application increases readability by reducing the maximum number of axis labels to 30. If the chart includes more than 30 values, it displays only every second or every third label.
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Axis Title Font | Specifies the font used to denote the labels of the x and y axes. It opens the Font dialog box. Default: 12-point Arial Select the arrow to the left of the Axis Scale Font option to display aspects of the label font that you can change:
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Axis Scale Font | Specifies the font used to denote the scale of the x and y axes. It opens the Font dialog box. Default: 10-point Arial Select the arrow to the left of the Axis Scale Font option to display aspects of the label font that you can change:
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Binning Options | |
Binning Method | Specifies the number of data groups used for display or the width of a single data group. The settings of this parameter are useful to adjust the appearance of the histogram to show the optimal representation of the data. For whole number values, the minimum width of a data group is 1. With whole data, the maximum number of data groups might differ from the specified value, because the group width must be a whole number, and the total width is given as the range between the minimum and the maximum value. For example, if you use a fixed number of columns and cannot divide the data range by the number of columns without residue, you cannot plot a histogram. Therefore, the application adjusts the number of columns to approximate the specified number and to meet the criterion that the quotient of the data range and number of columns be a whole number.
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Number of Bins | Specifies the number of categories used to group the data. Default: 20 NOTE For discrete numbers, the actual group number might be different. |
Bin Width | Specifies the width of a single category used to group the data. Default: 1 NOTE For discrete numbers, the actual group number might be different. |
Use Full Series Value Range | Determines the range of data values that the application uses to compile the histogram.
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Minimum Value | Specifies the minimum value of the data displayed range. When you use this parameter and the Maximum Value parameter, set Use Full Data Range to False. Use these two parameters when you want to show only a subrange of the data in a histogram. Default: 0 |
Maximum Value | Specifies the maximum value of the displayed data range. When you use this option and the Minimum Value option, set the Use Full Data Range parameter to False. Default: 183710534.292 |
Legend Options | |
Show Legend | Determines whether a legend appears and where it appears.
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Legend Font | Specifies the font of the legend that appears at the bottom of the histogram. It opens the Font dialog box. Default: 8-point Arial |
Series Options | |
Show Only Checked Items | Determines whether the chart is compiled from data in all result rows or only data in result rows marked by check marks.
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Show Decoy Items | Determines whether to display decoy data as a separate series. The decoy series contains the data from the decoy database search. The decoy data is not shown in the results. You might want to see how the filtered-out items are distributed without regard to single values to determine if the filter settings are right or if it is necessary to adjust them. If decoy data is available for the selected data item, the application displays it as a separate column next to the target data in the color specified by Decoy Series Color. If decoy data is not available, the legend notes this defect.
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Show Excluded Items | Determines whether to display data filtered out by the Peptide and Protein Filter node in the consensus workflow.
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Target Series Color | Specifies the color of the target series. The target series contains the data from the identified PSMs, peptide groups, proteins, and protein groups. Default: Firebrick |
Decoy Series Color | Specifies the color of the decoy series. Default: Black |
Excluded Target Series Color | Specifies the color of the excluded target series. The excluded target series is the data from identified items that the Peptide and Protein Filter node excluded in the consensus workflow. You might want to see how the filtered-out items are distributed without regard to single values to see if the filter settings are right or need adjusting. Default: Salmon |
Excluded Decoy Series Color | Specifies the color of excluded decoy data. Default: Silver |
