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Finally, the option Overlay is useful if you want to directly compare base counts over several samples (or groups) as each will be represented by a line (i.e. no stacking). Example in Figure 46 is based on microarray data, showing three groups on the same Alignments track. The red group has the highest base counts, while the counts in the blue group are much lower.
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| SubtitleText | Alignments track: coverage per locus is shown by using "Read histogram type" set to "Overlay". Each plot is a single experimental condition ("Group data by" set to "Attribute", "Color by" set to <Attribute>). Lines are rectangular since microarray data is used (an example) |
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| AnchorName | alignmentstrack |
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Transcript label
You can use the Transcript label selector to specify labels on the reference transcript track and Isoform proportion track (Figure 47).
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| SubtitleText | ranscript label: setting the control to Gene shows only gene label, while Transcript shows transcript labels. Both transcript database and Isoform proportion tracks are affected Short sequencing reads can be coloured by strand (Reads pileup color: Strand) or by base (Reads pileup color: Base). Both options are illustrated in Figure 48. |
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| AnchorName | Transcript label |
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Transcript label: Gene
Transcript label: Transcript
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Reads pileup and probe color
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| SubtitleText | Reads pileup color: colouring of the short sequencing reads by Strand or by Base |
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| AnchorName | Reads pileup color |
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Reads pileup color: Strand
Reads pileup color: Base
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| SubtitleText | Track order tool: To change the position of a track drag and drop to the new position. To pin a track to the top / bottom of the canvas, use the up and down arrows. To unpin a track, select the pin icon. A track can be hidden by clicking on the red minus symbol and unhidden by selecting the green plus. Coloured dot by a track names indicates the layers to which the track belongs (an example is shown) |
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| AnchorName | Track order tool |
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Selection Details
At the bottom of the control panel you will find the Selection details section (Figure 52). It is used to display information on the element selected on the canvas (using the Pointer mode).
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