How To Align 15Bp Length Reads By Shrimp
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9.5 years ago
Yunfei Li ▴ 310

Hi, I am testing different aligners for mapping single-end 15bp length reads back to genome. For SHRiMP, What would be an appropriate parameter setting? The parameter system seems much more complicated than other aligner like bowtie, bwa.

alignment • 1.6k views
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9.5 years ago
Stevelor ▴ 310

Have you seen this?? Haven't found anything else about 15bp reads :(

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thanks, I test bowtie and BWA, bowtie looks a bit better for me

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