Typically how many CLIP reads can be mapped to genome?
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6.1 years ago
yhu10thu • 0

Hi,guys,

I'm new to CLIP-seq study. I found some data from NCBI and try to map the date back to the genome. But I found only 10-20% of reads can be mapped to genome successfully. Is it normal?

Thanks

Yue

CLIP alignment • 1.1k views
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By the way, I use bowtie and the parameter according to the original paper. The parameter allow for one mismatch and trim the first six nucleotides because they are barcode.

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