Just a simple question: what does the "M" in MvA stand for. I'm
assuming "A" is average. I could not find the answer on the web.
Thanks.
Martino
---------------------------------------
Martino Barenco
CoMPLEX
4, Stephenson Way
London NW1 2HE
Tel.: +44 20 7679 5088
Fax.: +44 20 7679 5052 (please specify "CoMPLEX")
Email: m.barenco@ucl.ac.uk
Martino,
typically M=log(R)-log(G) and A=(log(R)+log(G))/2 where logs are base
2
and R is the red channel intensity and G the green channel one (after
possible background correction).
Elisabetta
On Tue, 17 Feb 2004, Martino Barenco wrote:
> Just a simple question: what does the "M" in MvA stand for. I'm
> assuming "A" is average. I could not find the answer on the web.
Thanks.
>
> Martino
>
> ---------------------------------------
> Martino Barenco
> CoMPLEX
> 4, Stephenson Way
> London NW1 2HE
> Tel.: +44 20 7679 5088
> Fax.: +44 20 7679 5052 (please specify "CoMPLEX")
> Email: m.barenco@ucl.ac.uk
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor@stat.math.ethz.ch
> https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
Hi Martino,
Minus.
Jean
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Jean Yee Hwa Yang jean@biostat.ucsf.edu
Division of Biostatistics, Tel: (415) 476-3368
University of California, Fax: (415) 476-6014
500 Parnassus Avenue, MU 420-W, San Francisco, CA 94143-0560
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
On Tue, 17 Feb 2004, Martino Barenco wrote:
> Just a simple question: what does the "M" in MvA stand for. I'm
> assuming "A" is average. I could not find the answer on the web.
Thanks.
>
> Martino
>
> ---------------------------------------
> Martino Barenco
> CoMPLEX
> 4, Stephenson Way
> London NW1 2HE
> Tel.: +44 20 7679 5088
> Fax.: +44 20 7679 5052 (please specify "CoMPLEX")
> Email: m.barenco@ucl.ac.uk
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor@stat.math.ethz.ch
> https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
>
also, its a pun. not only MA= minus-average but MA=micro-array.
On Tue, 17 Feb 2004, Jean Yee Hwa Yang wrote:
> Hi Martino,
>
> Minus.
>
> Jean
>
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
> Jean Yee Hwa Yang jean@biostat.ucsf.edu
> Division of Biostatistics, Tel: (415) 476-3368
> University of California, Fax: (415) 476-6014
> 500 Parnassus Avenue, MU 420-W, San Francisco, CA 94143-0560
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
> On Tue, 17 Feb 2004, Martino Barenco wrote:
>
> > Just a simple question: what does the "M" in MvA stand for. I'm
> > assuming "A" is average. I could not find the answer on the web.
Thanks.
> >
> > Martino
> >
> > ---------------------------------------
> > Martino Barenco
> > CoMPLEX
> > 4, Stephenson Way
> > London NW1 2HE
> > Tel.: +44 20 7679 5088
> > Fax.: +44 20 7679 5052 (please specify "CoMPLEX")
> > Email: m.barenco@ucl.ac.uk
> >
> > _______________________________________________
> > Bioconductor mailing list
> > Bioconductor@stat.math.ethz.ch
> > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
> >
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor@stat.math.ethz.ch
> https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
>
Unless I am mistaken, you are looking at a plot where the x-axis (A)
is the
product red ? green of the spot values and the y-axis (M) is the ratio
red /
green, of the spot values. For example, see
http://www.cmis.csiro.au/iap/tRMA/docs/tRMA.html
-----Original Message-----
From: bioconductor-bounces@stat.math.ethz.ch
[mailto:bioconductor-bounces@stat.math.ethz.ch] On Behalf Of Martino
Barenco
Sent: Tuesday, February 17, 2004 9:46 AM
To: bioconductor@stat.math.ethz.ch
Subject: [BioC] MvA plot
Just a simple question: what does the "M" in MvA stand for. I'm
assuming "A"
is average. I could not find the answer on the web. Thanks.
Martino
---------------------------------------
Martino Barenco
CoMPLEX
4, Stephenson Way
London NW1 2HE
Tel.: +44 20 7679 5088
Fax.: +44 20 7679 5052 (please specify "CoMPLEX")
Email: m.barenco@ucl.ac.uk
_______________________________________________
Bioconductor mailing list
Bioconductor@stat.math.ethz.ch
https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
At 01:45 AM 18/02/2004, you wrote:
>Just a simple question: what does the "M" in MvA stand for. I'm
assuming
>"A" is average. I could not find the answer on the web.
M - minus (log R "minus" log G)
A - add (log R "add" log G)
See Smyth, G. K., Yang, Y.-H., Speed, T. P. (2003). Statistical issues
in
microarray data analysis. In: Functional Genomics: Methods and
Protocols,
M. J. Brownstein and A. B. Khodursky (eds.), Methods in Molecular
Biology
Volume 224, Humana Press, Totowa, NJ, pages 111-136.
Cheers
Gordon
>Thanks.
>
>Martino
