Hi everyone,
I am aligning some ChIP-seq data using Bowtie. I have been using the -m option to throw out any reads with > 1 reportable alignment, but I would also like to try omitting non-unique reads. Is there a command line option to throw out any reads that are identical?
Thanks!
I am aligning some ChIP-seq data using Bowtie. I have been using the -m option to throw out any reads with > 1 reportable alignment, but I would also like to try omitting non-unique reads. Is there a command line option to throw out any reads that are identical?
Thanks!
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