conumee - adding bed file instead of sample detailed regions
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.
• 853 views
•
link
written
by
esimonova.me •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Error While Using BSmooth in bsseq
written by Burak Özyürek •
-
NA values in conumee detail
written by sativus •
-
cnetplot enrichment graph to cytoscape
written by Omics data mining
-
How to select data from assays list in SummarizedExperiment to plot
written by WUSCHEL
-
Why can't I quantify the peaks (scATAC)?
written by bioinformatics.girl •
-
Error while doing shannon and pielou index analysis using Vegan in R
written by sankadinesh •
-
Microarray Error
written by rpazo001 •
-
Create a seurat object from a DESeqDataSet
written by Kevin •
-
Copy number Variation analysis using conumee
written by gs000095 •
-
Error when trying to import GTF files using rtracklayer's import function
written by Marcel •
