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@@ -407,7 +407,6 @@ Finally, this portion of the pipeline will run [stageR](https://bioconductor.org
If [IsoformSwitchAnalyzeR](https://www.bioconductor.org/packages/release/bioc/html/IsoformSwitchAnalyzeR.html) finds genes with isoform switches it produces plots visualizing these switches. A separate set of switch plots is created for each contrast if that contrast contains significant switches. Further two .csv files are created, a summary and the main results. The .rds of the main R list gets also returned.
