Search
Question: Question about the function "summarizeOverlaps"
0
gravatar for myf3748
16 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 16 months ago by Michael Love12k • written 16 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 16 months ago by Michael Love12k
0
gravatar for Michael Love
16 months ago by
Michael Love12k
United States
Michael Love12k 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 16 months ago by Michael Love12k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 117 users visited in the last hour