[R] sequence clustering and assembly

[David Winsemius]

On Apr 14, 2010, at 11:19 PM, Bogdan Tanasa wrote:

> Dear all,
>
> please could you suggest any R functions or packages (or external  
> programs),
> that
>
> a. take as input a large number (> 10 000) of short 20-30 nt  
> sequences, and
> do
> sequence assembly, to reconstruct larger (extended) 30-50 sequences ?
>
> b. take as input a larger number of sequences (100 000 - 1 mil) and  
> cluster
> these
> sequences in distinct classes based on the sequence similarity  ?

Most of the discussion about genetics/omics applications occurs on the  
BioConductor mailing list. You should definitely seek it out, get the  
base installed and review their available online resources (before  
sending your next message to the correct mailing list.

http://www.bioconductor.org/docs

-- 

David Winsemius, MD
West Hartford, CT