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From: Maggie X <maggiexyz@gm...>  20141210 13:25:57

Hi Daniel, Can you show an example of the data that produced the uninvertible matrix? Maggie On Dec 8, 2014 2:10 PM, "Daniel Kitchener" <danielkitchener1@...> wrote: > I am trying to use the logistic function in PDL::Stats::GLM, but sometimes > get the error "Uninvertible matrix given to inv". I have traced this to > PDL::Fit::LM trying to invert a matrix to estimate covariance, and found > this related post from 2009: > http://mailman.jach.hawaii.edu/pipermail/perldl/2009November/002477.html > > However, it seems that there's not any resolution to that post. Is there a > way to work around this issue or make it not appear? > > For now, I've resorted to locally removing the matinv call > in PDL::Fit::LM::lmfit, as the output is never used by > PDL::Stats::GLM::logistic, but having a dependency on a forked module is > obviously not an ideal solution. > > Thanks > Daniel > > > > >  > Download BIRT iHub FType  The Free EnterpriseGrade BIRT Server > from Actuate! Instantly Supercharge Your Business Reports and Dashboards > with Interactivity, Sharing, Native Excel Exports, App Integration & more > Get technology previously reserved for billiondollar corporations, FREE > > http://pubads.g.doubleclick.net/gampad/clk?id=164703151&iu=/4140/ostg.clktrk > _______________________________________________ > pdlstatshelp mailing list > pdlstatshelp@... > https://lists.sourceforge.net/lists/listinfo/pdlstatshelp > > 
From: Daniel Kitchener <danielkitchener1@gm...>  20141208 19:10:17

I am trying to use the logistic function in PDL::Stats::GLM, but sometimes get the error "Uninvertible matrix given to inv". I have traced this to PDL::Fit::LM trying to invert a matrix to estimate covariance, and found this related post from 2009: http://mailman.jach.hawaii.edu/pipermail/perldl/2009November/002477.html However, it seems that there's not any resolution to that post. Is there a way to work around this issue or make it not appear? For now, I've resorted to locally removing the matinv call in PDL::Fit::LM::lmfit, as the output is never used by PDL::Stats::GLM::logistic, but having a dependency on a forked module is obviously not an ideal solution. Thanks Daniel 
From: Maggie Xiong <maggiexyz@us...>  20130319 00:13:54

Hi Ingo, Thanks for working out the issue! If you fork from the original pdlstats repo and push your change to the forked repo, you can then send me a link to the commit where you've made the change. Or, if you don't want to deal with git, you can email me the pp code and I'll take a look. Thanks! Here<http://net.tutsplus.com/tutorials/other/easyversioncontrolwithgit/>'s a simple git tutorial if you want to know the basics. There's a section on github. Best, Maggie On Mon, Mar 18, 2013 at 6:23 AM, Ingo Schmid <ingosch@...> wrote: > Hi, > > recently I've needed some simple pearson's correlations and found out > that ols can't handle missing values elegantly. fill_m doesn't do the job > if you need also pvalues. So I changed ols to filter rows from y and ivs > that contain bad values, then clear the flag before continuing. This is > based on a flag. > > Thing is, I've never used git so far, I managed to clone and pull, but am > unsure about how to commit GLM.pp and push it to the server for you to > review. > > Thanks > Ingo > > >  > Everyone hates slow websites. So do we. > Make your web apps faster with AppDynamics > Download AppDynamics Lite for free today: > http://p.sf.net/sfu/appdyn_d2d_mar > _______________________________________________ > pdlstatshelp mailing list > pdlstatshelp@... > https://lists.sourceforge.net/lists/listinfo/pdlstatshelp > > 
From: Ingo Schmid <ingosch@gm...>  20130318 10:23:57

Hi, recently I've needed some simple pearson's correlations and found out that ols can't handle missing values elegantly. fill_m doesn't do the job if you need also pvalues. So Ichanged ols to filter rows from y and ivs that contain bad values, then clear the flag before continuing. This is based ona flag. Thing is, I've never used git so far,I managed to clone and pull, butam unsure about how to commit GLM.pp and push it to the server for you to review. Thanks Ingo 
From: Maggie X <maggiexyz@gm...>  20120723 21:55:19

Both modules are part of the PDL::Stats package. You get them when you install PDL::Stats. On windows the installation process often skips these two modules because it can't find the gsl libs. You can download the pdlstats ppm from sysphus' repo where it's compiled against gsl so have all the modules. As to gaps, you can use bad value. Or if it's something like discreet vs. continuous distribution you can also warn the user about the expected input or value range, then bail out on it. Best, Maggie On Jul 23, 2012 5:01 PM, "Boyd Duffee" <b.duffee@...> wrote: > Hi all, > > In the pod for PDL::Stats, it says that PDL::Stats is a short cut for > <modules> and _if installed_ use PDL::Stats::Distr and use PDL::GSL::CDF > Both of these modules sound like something that I'd like to use, but I > can't find them on cpan. Any idea where I could get my hands on them? > > I'm building up probability distributions in order to fit power law > exponents to the curves. I can't guarantee to have a point for each x > value in the curve, so I'm assuming that I'd need to use bad values for > those gaps. Any suggestions? > > thanks, >  > Boyd Duffee Keele University > Systems Guy (01782) 734225 > It is amazing what you can accomplish if you are > willing to let someone else take the credit. > > > >  > Live Security Virtual Conference > Exclusive live event will cover all the ways today's security and > threat landscape has changed and how IT managers can respond. Discussions > will include endpoint security, mobile security and the latest in malware > threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ > _______________________________________________ > pdlstatshelp mailing list > pdlstatshelp@... > https://lists.sourceforge.net/lists/listinfo/pdlstatshelp > 
From: Boyd Duffee <b.duffee@ke...>  20120723 20:45:28

Hi all, In the pod for PDL::Stats, it says that PDL::Stats is a short cut for <modules> and _if installed_ use PDL::Stats::Distr and use PDL::GSL::CDF Both of these modules sound like something that I'd like to use, but I can't find them on cpan. Any idea where I could get my hands on them? I'm building up probability distributions in order to fit power law exponents to the curves. I can't guarantee to have a point for each x value in the curve, so I'm assuming that I'd need to use bad values for those gaps. Any suggestions? thanks,  Boyd Duffee Keele University Systems Guy (01782) 734225 It is amazing what you can accomplish if you are willing to let someone else take the credit. 
From: Boyd Duffee <b.duffee@is...>  20120723 20:16:22

Hi all, In the pod for PDL::Stats, it says that PDL::Stats is a short cut for <modules> and _if installed_ use PDL::Stats::Distr and use PDL::GSL::CDF Both of these modules sound like something that I'd like to use, but I can't find them on cpan. Any idea where I could get my hands on them? I'm building up probability distributions in order to fit power law exponents to the curves. I can't guarantee to have a point for each x value in the curve, so I'm assuming that I'd need to use bad values for those gaps. Any suggestions? thanks,  Boyd Duffee Keele University Systems Guy (01782) 734225 It is amazing what you can accomplish if you are willing to let someone else take the credit. 
From: Maggie Xiong <maggiexyz@us...>  20111012 00:39:27

Thank you for the feedback! The warning was in place primarily for debugging build failures. I should be able to either make the warning optional or move it to the make test process in the next release. As to PDL::Slatec (and PDL::GSL::CDF) with Strawberry Perl, you can try the ppm builds (the ppm utility <http://search.cpan.org/dist/PPM/>; is available from cpan): ppm install http://www.sisyphusion.tk/ppm/PGPLOT.ppd ppm install http://www.sisyphusion.tk/ppm/PDL.ppd ppm install http://www.sisyphusion.tk/ppm/PDLStats.ppd Best, Maggie On Tue, Oct 11, 2011 at 5:02 PM, Bruce Ravel <bravel@...> wrote: > > Hi, > > I have been using PDL::Stats for some time now. It's great! Thanks a > million! > > I don't love that PDL::Stats::GLM complains about the absence of > PDL::Slatec. The documentation states that PDL::SLatec is only > *required* for the logistic method (which I am not using). > > I find it to be hit or miss as to whether PDL::Slatec installs easily. > On most of my linux machines  no problem. On all of my Windows > machines using Strawberry, not so much. Since I do not use the > logistic method, I find the warning to be unnecessary. > > I have a lot of unsavvy users of my software for whom a > notquitenecessary warning is bound to be pretty scary. My > preference would be for PDL::Stats::GLM to croak or die if logistic is > called in the absence of PDL::Stats, but for it to be silent in any > other case. > > Thanks! > Bruce > >  > > Bruce Ravel  bravel@... > > National Institute of Standards and Technology > Synchrotron Methods Group at NSLS  Beamlines U7A, X24A, X23A2 > Building 535A > Upton NY, 11973 > > My homepage: http://xafs.org/BruceRavel > EXAFS software: http://cars9.uchicago.edu/ifeffit/Demeter > > >  > All the data continuously generated in your IT infrastructure contains a > definitive record of customers, application performance, security > threats, fraudulent activity and more. Splunk takes this data and makes > sense of it. Business sense. IT sense. Common sense. > http://p.sf.net/sfu/splunkd2doct > _______________________________________________ > pdlstatshelp mailing list > pdlstatshelp@... > https://lists.sourceforge.net/lists/listinfo/pdlstatshelp > 
From: Bruce Ravel <bravel@bn...>  20111011 21:03:19

Hi, I have been using PDL::Stats for some time now. It's great! Thanks a million! I don't love that PDL::Stats::GLM complains about the absence of PDL::Slatec. The documentation states that PDL::SLatec is only *required* for the logistic method (which I am not using). I find it to be hit or miss as to whether PDL::Slatec installs easily. On most of my linux machines  no problem. On all of my Windows machines using Strawberry, not so much. Since I do not use the logistic method, I find the warning to be unnecessary. I have a lot of unsavvy users of my software for whom a notquitenecessary warning is bound to be pretty scary. My preference would be for PDL::Stats::GLM to croak or die if logistic is called in the absence of PDL::Stats, but for it to be silent in any other case. Thanks! Bruce  Bruce Ravel  bravel@... National Institute of Standards and Technology Synchrotron Methods Group at NSLS  Beamlines U7A, X24A, X23A2 Building 535A Upton NY, 11973 My homepage: http://xafs.org/BruceRavel EXAFS software: http://cars9.uchicago.edu/ifeffit/Demeter 
From: Maggie Xiong <maggiexyz@us...>  20110428 01:39:02

Thank you David. I'll add it to the todo list for the next release. Best, Maggie On Wed, Apr 27, 2011 at 8:35 AM, <dwm042@...> wrote: > > Thank you Maggie. > > What I'd like to be able to do, with things like the logistic function > (any curve fitter > in PDL::Stats, actually) is something like this: > > my %m = $y>logistic( COV => 1 ); > print $m{cov}>corr_table(); > > I don't think logistic should return the covariance matrix by default, > but I would like > to be able to get to it. > > A single line patch in GLM.pm, after %ret is declared, around line 2000 > or so.. > > $ret{cov} = $cov if ( $opt{COV} ); > > would do the trick for logistic, I believe. I don't think $cov is out of > scope by that point. > > Sincerely, > > David Myers. > > > > >  > WhatsUp Gold  Download Free Network Management Software > The most intuitive, comprehensive, and costeffective network > management toolset available today. Delivers lowest initial > acquisition cost and overall TCO of any competing solution. > http://p.sf.net/sfu/whatsupgoldsd > _______________________________________________ > pdlstatshelp mailing list > pdlstatshelp@... > https://lists.sourceforge.net/lists/listinfo/pdlstatshelp > > 
From: <dwm042@em...>  20110427 12:53:06

Thank you Maggie. What I'd like to be able to do, with things like the logistic function (any curve fitter in PDL::Stats, actually) is something like this: my %m = $y>logistic( COV => 1 ); print $m{cov}>corr_table(); I don't think logistic should return the covariance matrix by default, but I would like to be able to get to it. A single line patch in GLM.pm, after %ret is declared, around line 2000 or so.. $ret{cov} = $cov if ( $opt{COV} ); would do the trick for logistic, I believe. I don't think $cov is out of scope by that point. Sincerely, David Myers. 
From: Maggie Xiong <maggiexyz@us...>  20110426 13:00:32

In the context of logistic regression, by cross correlation you mean Pearson correlation matrix for a set of variables? The function corr_table() in PDL::Stats::Basic can give you that. You can also calculate it from covariance matrix by dividing the covariance with the product of of the standard deviations of the two variables you are correlating with. Best, Maggie On Mon, Apr 25, 2011 at 10:54 PM, <dwm042@...> wrote: > > I apologize in advance if this is obvious. I'm an exscientist, from a > generation for which Bevington's "Data Reduction > and Error Analysis in the Physical Sciences" was our Bible. To determine > cross correlation of a fit, we'd extract > the covariance matrix from our fitters, do some math presto magico things, > and then could determine if > we were fitting cross correlated data (then drop one of the correlated > coefficients from our models..). > > I'm working with PDL::Stats logistic method. Works great, but haven't a > clue how to detect cross correlation. > I suspect the "how" is obvious to a stats major, but not to an > exbiochemist like me. The underlying fitter > returns $cov, but no clue how to get to it. > > Any help appreciated. > > Sincerely, > > David Myers. > > >  > WhatsUp Gold  Download Free Network Management Software > The most intuitive, comprehensive, and costeffective network > management toolset available today. Delivers lowest initial > acquisition cost and overall TCO of any competing solution. > http://p.sf.net/sfu/whatsupgoldsd > _______________________________________________ > pdlstatshelp mailing list > pdlstatshelp@... > https://lists.sourceforge.net/lists/listinfo/pdlstatshelp > > 
From: <dwm042@em...>  20110426 03:10:01

I apologize in advance if this is obvious. I'm an exscientist, from a generation for which Bevington's "Data Reduction and Error Analysis in the Physical Sciences" was our Bible. To determine cross correlation of a fit, we'd extract the covariance matrix from our fitters, do some math presto magico things, and then could determine if we were fitting cross correlated data (then drop one of the correlated coefficients from our models..). I'm working with PDL::Stats logistic method. Works great, but haven't a clue how to detect cross correlation. I suspect the "how" is obvious to a stats major, but not to an exbiochemist like me. The underlying fitter returns $cov, but no clue how to get to it. Any help appreciated. Sincerely, David Myers. 