[BioC] Question about Package EBarrays

[Sean Davis]

On Fri, Jun 6, 2008 at 11:44 AM, ss <affysnp at gmail.com> wrote:
> Hi Sean,
>
> Thanks! Yeah, I got that. It says "...these xji are recorded on the original
> measurement
> scale or that they have been log-transformed". But one of the authors of
> EBarrays, Dr.
> Michael Newton replied (see below) and agree what I said. I will double
> check.

Hi, Allen and Michael.

I stand corrected.  Sorry for the misinformation!

Sean

> On Thu, Jun 5, 2008 at 11:56 PM, Michael Newton <newton at biostat.wisc.edu>
> wrote:
>
> That's right...
> -Michael N.
>
> On Fri, Jun 6, 2008 at 7:32 AM, Sean Davis <sdavis2 at mail.nih.gov> wrote:
>>
>> On Thu, Jun 5, 2008 at 7:59 PM, ss <affysnp at gmail.com> wrote:
>> > Dear list,
>> >
>> > Hi! I have a question about EBarrays. It seems to me that EBarrays
>> > requires
>> > the array data not
>> > be transformed. The data called 'gould' has been used as an example in
>> > the
>> > vignette. And by
>> > looking at first few data it could support my guess.
>> >
>> >> gould[1:4,1:4]
>> >                CopK759   WFK759 WFK842.12 CopN9CK758.1
>> > S80456.s.at     336.691  281.002   360.969      258.360
>> > S82229.s.at    1461.250 1312.740   857.921     1559.740
>> > U01022.s.at    1057.500  668.640   879.656      885.964
>> > U02553cds.s.at  896.886 1207.350  1302.750     1302.970
>> >
>> > Am I correct?
>>
>> Hi, Allen.  Your best bet is to read all the documentation thoroughly.
>>  For example, look at the second sentence of section 2 of the vignette
>> from which you are taking your example.  It suggests that your guess
>> is incorrect.
>>
>> Sean
>
>