[BioC] buglet (?) snprma (oligo)

[Benilton Carvalho]

Hi Tobias,

sorry for the late reply.

I've just committed a change which uses  
preprocessCore:::normalize.quantiles.use.target instead of the code  
mentioned below.

thanks,

b

On Sep 2, 2007, at 3:18 AM, Tobias Verbeke wrote:

> Dear list,
>
> I discovered an oddity in snprma (oligo,
> svn revision 26822). It appears that ranks
> are used to extract elements from vectors in
>
>      for (i in 1:ncol(tmpExprs))
>        tmpExprs[, i] <- reference[rank(tmpExprs[, i])]
>
>
> This might break iff there are two values that
> are exactly equal as can be seen from
>
>    bar <- 2 * c(2, 4, 4, 5, 1)
>    rank(bar)
>    foo <- 1:5
>    foo[bar]
>
> A solution would be to specify an alternative
> ties.method such as
>
>    rank(bar, ties.method = "first")
>
> Any thoughts?
>
> Regards,
> Tobias
>
> -- 
>
> Tobias Verbeke - Consultant
> Business & Decision Benelux
> Rue de la révolution 8
> 1000 Brussels - BELGIUM
>
> +32 499 36 33 15
> tobias.verbeke at businessdecision.com
>
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