Re: st: New version of -qqvalue- for SSC

[Roger Newson <r.newson@imperial.ac.uk>]

Sorry about this. This message was intended for Kit Baum, and not for 
Statalist (where attachments are banned). The new version referred to is 
currently available on my website, but I have now sent a copy to Kit 
Baum for distribution on SSC when he returns to Boston,

Best wishes

Roger


Roger B Newson BSc MSc DPhil
Lecturer in Medical Statistics
Respiratory Epidemiology and Public Health Group
National Heart and Lung Institute
Imperial College London
Royal Brompton Campus
Room 33, Emmanuel Kaye Building
1B Manresa Road
London SW3 6LR
UNITED KINGDOM
Tel: +44 (0)20 7352 8121 ext 3381
Fax: +44 (0)20 7351 8322
Email: r.newson@imperial.ac.uk
Web page: http://www.imperial.ac.uk/nhli/r.newson/
Departmental Web page:
http://www1.imperial.ac.uk/medicine/about/divisions/nhli/respiration/popgenetics/reph/

Opinions expressed are those of the author, not of the institution.

On 08/08/2010 19:27, Roger Newson wrote:
> Hello Kit
>
> Please find attached the latest version of the -qqvalue- package
> (defined as below on my website) for distribution on SSC when you return
> to Boston after 12 August.
>
> The new version replaces the terminology "quasi-q-value" with "q-value"
> in the .pkg file, in the on-line help, and in the labels of the
> generated variables. I was advised by Gordon Smyth (the author of the R
> package -p.adjust-, which does a similar job in R) that the "quasi-" is
> not really necessary, as people he knows just call them "q-values". I
> have therefore altered the terminology to remove the "quasi-", but use
> the term "frequentist q-values" when I need to make a distinction
> between the frequentist q-values produced by -qqvalue- and -p.adjust-
> and the original empirical Bayesian q-values defined by John Storey.
>
> Best wishes (and thanke in advance)
>
> Roger
>
>
> Roger B Newson BSc MSc DPhil
> Lecturer in Medical Statistics
> Respiratory Epidemiology and Public Health Group
> National Heart and Lung Institute
> Imperial College London
> Royal Brompton Campus
> Room 33, Emmanuel Kaye Building
> 1B Manresa Road
> London SW3 6LR
> UNITED KINGDOM
> Tel: +44 (0)20 7352 8121 ext 3381
> Fax: +44 (0)20 7351 8322
> Email: r.newson@imperial.ac.uk
> Web page: http://www.imperial.ac.uk/nhli/r.newson/
> Departmental Web page:
> http://www1.imperial.ac.uk/medicine/about/divisions/nhli/respiration/popgenetics/reph/
>
> Opinions expressed are those of the author, not of the institution.
>
> --------------------------------------------------------------------------------------------------
> package qqvalue from http://www.imperial.ac.uk/nhli/r.newson/stata10
> --------------------------------------------------------------------------------------------------
>
> TITLE
>         qqvalue: Generate frequentist q-values by inverting multiple-test
> procedures
>
> DESCRIPTION/AUTHOR(S)
>         qqvalue is similar to the R package p.adjust.  It inputs a single
>         variable, assumed to contain P-values calculated for multiple
>         comparisons, in a dataset with 1 observation per comparison.  It
>         outputs a new variable, containing the q-values corresponding to
>         these P-values, calculated by inverting a multiple-test procedure
>         specified by the user.  These q-values represent, for each
>         corresponding P-value, the minimum uncorrected P-value threshold
>         for which that P-value would be in the discovery set, assuming that
>         the specified multiple-test procedure was used on the same set of
>         input P-values to generate a corrected P-value threshold.  These
>         minimum uncorrected P-value thresholds may represent familywise
>         error rates or false discovery rates, depending on the procedure
>         used.  Optionally, qqvalue may output other variables, containing
>         the various intermediate results used in calculating the
>         q-values.  The multiple-test procedures available for
>         qqvalue are a subset of those available using the multproc module
>         of the smileplot package, which can be downloaded from SSC.
>
>         Author: Roger Newson
>         Distribution-Date: 08august2010
>         Stata-Version: 10
>
> INSTALLATION FILES                                  (click here to install)
>         qqvalue.ado
>         qqvalue.sthlp
> --------------------------------------------------------------------------------------------------
> (click here to return to the previous screen)
>
>
> On 31/07/2010 14:06, Christopher Baum wrote:
> > SSC Archive updates will be on hold 1-12 August while I am traveling. Materials sent during that time will be processed after 12 August.
> >
> > Kit Baum
> >
> > Research Papers in Economics (RePEc)
> > http://repec.org
> >
> >
> >
> >
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