[R] Removing 99% similar sequence help

[David Winsemius]

On Feb 4, 2015, at 11:42 AM, Nick Jeffery wrote:

> Dear R users,
> 
> I am having trouble finding a package and function to remove DNA sequences
> from a fasta file that are >99% similar and/or create an output of the
> remaining "unique" sequences. I found the uniquefasta function in phytools
> but R can't find this function and also doesn't allow me to set the 99%
> parameter. This is because I'm building a phylogeny with tons of nearly
> identical sequences so I want to reduce the number of individuals.
> 

R can't find this function ????

I'm guessing this could be a case of FAQ 7.30:
http://127.0.0.1:11553/doc/manual/R-FAQ.html#I-installed-a-package-but-the-functions-are-not-there


> 
> Thanks for any help and suggestions,
> Nick
> 
> -- 
> Nick Jeffery, PhD Candidate
> Integrative Biology
> SCIE 1453
> University of Guelph
> Guelph, Ontario, Canada
> 
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> 
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David Winsemius
Alameda, CA, USA