Gviz and datatracks
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Bogdan ▴ 640
@bogdan-2367
Last seen 3 days ago
Palo Alto, CA, USA

Dear all,

I am using Gviz and I am aiming to upload either a bigwig, wig or bedGraph file ; and I am getting the following error

Please would you advise if there is a way to fix it please. Thank you

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dTrack2 <- DataTrack(range = bgFile, genome = "hg38", type = "l", 
+                      chromosome = "chr1", name = "bigwig")
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'tolower': Unable to identify extension for file ''

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Gviz • 395 views
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what is the value of bgFile? It probably does not have an extension the DataTrack recognizes....

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@corinne_hutfilz-22548
Last seen 10 weeks ago
United States

Perhaps you were referencing your file incorrectly. The Gviz vignette uses practice data within the package, so it references it using the system.file() function, e.g. system.file("extdata/test.bam", package = "Gviz"). Your own data should be referenced directly, e.g. bgFile = "path/to/myfile.bg"

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