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-   -   Quantification: count reads or count base pairs? (http://seqanswers.com/forums/showthread.php?t=12997)

yuelics 07-27-2011 04:48 AM

Quantification: count reads or count base pairs?
 
Hi all,

I am new to the field. Here is a silly question:

For quantification of defined genomic regions (let it be genes, windows of a fixed size, etc) based on sequencing data, why do people rarely count base-pairs within the regions but rather count reads.

Could anyone shed some light on the dis/advantages for counting base-pairs/reads?

Thanks in advance


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