The bar charts are accessible via the heat map or the “Combined chart” button (see Heat map).
The parts encircled in violet are just visible for the grouped view. In general the bar chart painter can be separated into 6 parts:
1. | Display settings: This is for changing the bar chart display. | ||
- | quant-type: Determines the type of values that have to be displayed. | ||
a. | area absolute: The absolute area values as they are returned from the algorithm, or if there is a standardization on an internal or external standard these values are the standardized ones. | ||
b. | percentual values: The selected molecules/group/sample correspond to 100% and the values are displayed relative to this amount. | ||
c. | area relative to molecule: The values are displayed relative to the median. | ||
d. | area relative to standard: The values are displayed in relation to the calculated standard (just available if a standardization is selected). | ||
e. | absolute quantity: The values are displayed in the quantity that are selected at the “Settings button&rdquo of the Heat map. The bar chart will always appear in this setting by default, except if “relative value” is selected in the settings. | ||
- | a small select box after the quant-type: This box is just visible for the “absolute quantity” settings. The input specifies the magnifier (available are none, m, μ, n, p, f, a, %, and ‰). | ||
- | radio button single-sided double-sided: just enabled for “area relative to molecule” and “area relative to standard”. For single sided the values always start with 0. For double sided the area is relative to the median/standard, and lower values are painted in negative direction and higher values in positive direction. | ||
- | radio button logarithmic linear: Available for “area absolute”, “percentual values”, and “absolute quantity”. This option switches between linear and logarithmic (log10) display. | ||
- | radio button log10 log2: Available for “area relative to molecule” and “area relative to standard”. Toggles between decadic- and dual logarithm. | ||
- | isotopes: Determines the amount of isotopes that should be used for the quantitative value. | ||
2. | Deviation settings: Available just for groups. This value defines how the error bars should be displayed. The deviation can be displayed at any multiplicative value (1.0 is default) and the standard error mean can be displayed. | ||
3. | Export settings: Settings for the export in Excel and Text format. These are the same like described at Heat map “Export options”. | ||
4. | Bar char: The main painting area. At the top in the center, the lipid class and the value type is displayed. On the left, written vertically, the used standardization procedure is displayed. At the top of the vertical axis, the current unit is displayed. In the horizontal axis, the molecule, samples or respectively groups are displayed. | ||
5. | Color selection: In this legend the used color and the corresponding item is displayed. If the mouse is clicked on this legend, the color can be changed. | ||
6. | Export bar: The picture of the heat map or the data respectively can be exported in the following formats: PNG = portable network graphics; SVG = scalable vector graphics; Excel = Microsoft Excel; Text = text based format (tab delimited). |