conumee - adding bed file instead of sample detailed regions
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2.4 years ago
esimonova.me ▴ 20

I am analyzing the Methylation Array (EPIC) with conumee package. I am trying to import a list of regions in which I am interested to see CNVs with the following command.

library(rtracklayer)

anno <- CNV.create_anno(array_type = "EPIC", exclude_regions = NULL, detail_regions = "geny.bed")

I receive the following error.

using genome annotations from UCSC getting EPIC annotations conumee - 844316 probes used importing regions for detailed analysis Error in h(simpleError(msg, call)) : error in evaluating the argument 'x' in selecting a method for function 'sort': scan() expected 'a real', got 'PAX7'

For the whole analysis, I followed the steps from conumee package.

conumee R rtracklayer • 503 views
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