AltExonViewer modified by Anonymous

Anonymous — Sat, 01 Feb 2014 01:06:17 -0000

Alternative Exon Visualization in AltAnalyze

In addition to visualization of alternative exons in the Cytoscape plugin DomainGraph, AltAnalyze contains a built in alternative exon viewer called AltExonViewer. This function allows users to display gene data in the form of a line graph depicting exons along the X-axis and exon-expression or splicing index fold change along the Y-axis.

Analysis Details

Expression values from each group are summarized as a single line color, with standard-error values included. One gene or multiple genes can be displayed at a time using a manual text entry field (e.g., SOX2 NANOG POU5F1 TCF7L1) or through a file selection option. Probed UTR regions and Introns can also be optionally displayed.

To visualize exon-expression, select the raw expression option. This option requires that input expression files have already been generated and analyzed with AltAnalyze (conforming to the standard file locations – e.g., ExpressionInput/exp. file). To visualize alternative exon-expression directly, select the splicing-index option. This option works for already produced alternative exon results, which are saved to the folder AltResults/RawSpliceData. When analyzing a dataset with more than two groups, re-run the AltAnalyze workflow beginning with the Process AltAnalyze Filtered option and selecting the all groups selection for Comparisons to Perform option.

Recent changes to AltExonViewer

AltExonViewer modified by Anonymous

Alternative Exon Visualization in AltAnalyze

Analysis Details