[BioC] align microRNA with custom mRNA sequences

[Hervé Pagès]

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?

Cheers,
H.

>
> Thank you in advanced!
> Jason
>


-- 
Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M1-B514
P.O. Box 19024
Seattle, WA 98109-1024

E-mail: hpages at fhcrc.org
Phone:  (206) 667-5791
Fax:    (206) 667-1319