Question: Error in importing BAM files
gravatar for Constantine
4.2 years ago by
Constantine220 wrote:


I've downloaded a BAM file from UCSC and trying to familiarise with a few packages found in R. 

I'm currently using "Rsamtools" to import the BAM file, however, I get the following error message: 

Error in seqlevels(seqinfo(x)) : 
  error in evaluating the argument 'x' in selecting a method for function 'seqlevels': Error in .normargSeqlevels(seqnames) : 
  supplied 'seqlevels' cannot contain duplicated sequence names

Any idea on how to circumvent this problem?


chip-seq • 1.4k views
ADD COMMENTlink written 4.2 years ago by Constantine220

The error is clear, you have duplicate sequence names in your data...

ADD REPLYlink written 4.2 years ago by iraun3.5k

I understand the nature of the problem. My question was whether there is a way to select for non-duplicated sequence names

ADD REPLYlink modified 4.2 years ago • written 4.2 years ago by Constantine220
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