[BioC] The funcion getOrfs, doesn`t works, package: GeneR

avargas avargas at lcg.unam.mx
Fri Oct 9 07:04:59 CEST 2009


Dear list, i have some troubles with the GeneR package, it seems that
getOrfs is not working. I already try to use it with the example info of
the help:

library("GeneR")
s<-"gtcatgcatgctaggtgacagttaaaatgcgtctaggtgacagtctaacaa"
placeString(s)

getOrfs(phase = NULL,seqno=0)
maxOrf()

But returns:
> getOrfs(phase = NULL,seqno=0)
NULL
> maxOrf()
[1] -1
I have the version 2.10 of R and the Package GeneR version 2.15.0
I mean, the examples of
http://rss.acs.unt.edu/Rdoc/library/GeneR/doc/GeneR.pdf at page 5 are not
reproducible, so, which is the problem?
In advance, thanks.

Amhed Missael Vargas Velàzquez
avargas at lcg.unam.mx
LCG,UNAM

Pd: I think that the problem is with another function named, exact word,
that does not work too.
i.e.
library("GeneR")
placeString("TTTTTTTTTTTT")
exactWord("TTT")



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