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Question: Question about the function "summarizeOverlaps"
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gravatar for myf3748
14 months ago by
myf37480
myf37480 wrote:

Hi

When I run summarizeOverlaps as follow:

se <- summarizeOverlaps(features=ebg, reads=bamfiles,
                        mode="Union",
                        singleEnd=FALSE,
                        ignore.strand=TRUE,
                        fragments=TRUE)

 

It return message:"Error in .local(features, reads, mode, algorithm, ignore.strand, ...) :
  duplicate 'names(reads)' not allowed"

I wonder whether this was caused by multihits of read in Bam file?

Thanks.

 

ADD COMMENTlink modified 14 months ago by Michael Love11k • written 14 months ago by myf37480

I'm adding the relevant package, GenomicAlignments, and removing the DESeq2 tag, as this function is not part of DESeq2.

ADD REPLYlink written 14 months ago by Michael Love11k
0
gravatar for Michael Love
14 months ago by
Michael Love11k
United States
Michael Love11k wrote:

See this answer to a related question. I found this other question by pasting the error into the search bar above.

Error when counting reads in genes with summarizeOverlaps (Genomic-Aligments package)

 

ADD COMMENTlink written 14 months ago by Michael Love11k
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