generateHEXplorerPlot {VarCon} | R Documentation |
This function generates a plot depicting the HZEI score changes and changes in the HBS or MaxEntScan score, from a sequence variation.
generateHEXplorerPlot(variationInfoList, ntWindow)
variationInfoList |
Output from the |
ntWindow |
Numeric value defining the sequence surrounding of interest. |
Plot stating the HZEI values per nt and splice site strength with and without the SNV.
#Defining exemplary input data transcriptTable <- transCoord # Using pseudo transcript table transcriptID <- "pseudo_ENST00000650636" # Using pseudo transcript variation <- "c.412C>G/p.(T89M)" ntWindow <- 20 gene2transcript <- data.frame(gene_name = "Example_gene", gene_ID = "pseudo_ENSG00000147099", transcript_ID = "pseudo_ENST00000650636") results <- getSeqInfoFromVariation(referenceDnaStringSet, transcriptID, variation, ntWindow=ntWindow, transcriptTable, gene2transcript) generateHEXplorerPlot(results)