Gviz for Plotting DMRs

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Ayesha Tariq

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Jul 14, 2020, 1:36:13 PM7/14/20

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Hi, I am using Gviz package for plotting DMRs. So far I have successfully created attrack, itrack and Genome axis tracks. I want to create a gtrack with gene annotation information. I have used the following code

grtrack <- GeneRegionTrack(DMRs, genome = "hg19", chromosome = chr, name = "Genes", transcriptAnnotation = "symbol", background.title = "brown") plotTracks(list(itrack, gtrack, atrack, grtrack))

The working DMRs file is a Grange object which I have created from a CSV. My original CSV has following information

id Chromosome Start End symbol mean.mean.diff

ENSG00000272438 chr1 840214 851356 TNFRSF4 -0.036783899

Executing the above I am getting the plot but instead of gene symbol every gene is named as unknown. Can anyone help with that?

Best,

Ayesha

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