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genmod Links numerical improvements #2024

josef-pkt opened this issue Oct 3, 2014 · 2 comments


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commented Oct 3, 2014

reported by Brent Pedersen on mailing list

In doing so, I noticed that using families.links.Logit.inverse gives
nan with these Z's:

z = [1123.4910007309222, 1483.952316802719, 1344.86033748641,
706.339159002542, 1167.9986375146532, 663.8345826933115,
1496.3691686913917, 1563.0763842182257, 1587.4309332296314,
697.1173174974248, 1333.7256198289665, 1388.7667560586933,
819.7605431778434, 1479.9204150555015, 1078.5642245164856,
480.10338454985896, 1112.691659145772, 534.1061908007274,
918.2011296406588, 1280.8808515887802, 758.3890788775948,
673.503699841035, 1556.7043357878208, 819.5269028006679,
1262.5711060356423, 1098.7271535253608, 1482.811928490097,
796.198809756532, 893.7946963941745, 470.3304989319786,
1427.77079226037, 1365.2050226373822, 1492.4193201661922,
871.9922191949931, 768.4735925445908, 732.9222777654679,
812.2382651982667, 495.06449978924525]

If I use: 1 / (1. + np.exp(-z))
as the inverse, it works fine.

there are a few more places similar to t/(1+t), for example logit deriv2 and negative binomial link

Related: scipy.special has now some new special functions for these kinds of expressions with better corner case behavior. (several changes in scipy.stats benefit currently from improvements.)


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commented Oct 5, 2014

Improvements here would be helpful. I have been working with a Poisson regression in which 40% of the deviance residuals are NaN.


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commented Oct 5, 2014

About Poisson deviance residuals:
scipy.special got a xlogy function that handles 0*log(0) I don't remember which version it was added.

Poisson.deviance has a specific code for the endog==0 case, but Poisson.resid_dev doesn't

@jseabold jseabold added this to the 0.6 milestone Oct 6, 2014

josef-pkt added a commit to josef-pkt/statsmodels that referenced this issue Jan 31, 2018

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