[BioC] align microRNA with custom mRNA sequences

Hervé Pagès hpages at fhcrc.org
Fri Aug 12 01:17:03 CEST 2011

Hi Jason,

On 11-07-19 07:19 PM, Jason Shoemaker wrote:
> Dear members,
> I was wondering if anyone can recommend software for aligning endogenous
> microRNAs (from mirBASE) with a custom mRNA sequence our lab recently
> received. I looked into the microRNA package, but it only allows for perfect
> alignment, which I believe is limited to prokaryotes?

Have you tried the Biostrings package?


> Thank you in advanced!
> Jason

Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
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