Thanks for the information. Drew Tyre <aty...@unl.edu> escreveu no dia segunda, 18/03/2019 à(s) 11:48:
> I don't think the number of presences is the problem. > "A term has fewer unique covariate combinations than specified maximum > degrees of freedom" > One of your covariates has a small number of unique values. > lapply(your_data_frame, function(x)length(unique(x))) > will print out the number of unique values in each variable. Values < 30 > could be problematic -- the docs are a bit ambiguous on the default values > of k, the maximum degrees of freedom for a smooth term. Another approach to > diagnose the problem is to set k to a low value, like 5, and see if that > makes the problem go away. I'm not familiar with biomod2, but I think doing > something like > MO <- BIOMOD_ModelingOptions(GAM = list(k = 5)) > BIOMOD_Modeling( ..., models.options = MO, ...) > > should do it. Note that setting k to a low value causes other problems, I > would use mcgv::gam.check() to ensure k is large enough, but I don't know > how to do that with biomod2. > > hth > > -- > Drew Tyre > > School of Natural Resources > University of Nebraska-Lincoln > 416 Hardin Hall, East Campus > 3310 Holdrege Street > Lincoln, NE 68583-0974 > > phone: +1 402 472 4054 > fax: +1 402 472 2946 > email: aty...@unl.edu > http://snr.unl.edu/tyre > http://drewtyre.rbind.io > The point is that our true nature is not some ideal that we have to > live up to. It’s who we are right now, and that’s what we can make friends > with and celebrate. > Excerpted from: Awakening Loving-Kindness by Pema Chödrön > > > On 3/18/19, 6:28 AM, "R-sig-ecology on behalf of Lara Silva" < > r-sig-ecology-boun...@r-project.org on behalf of lara.sfp.si...@gmail.com> > wrote: > > Hello > > I am trying to run several algorithms in biomod 2 (GLM, GAM, ANN, SRE) > but > I received the following menssage. > > Model=GAM > GAM_mgcv algorithm chosen > Automatic formula generation... > > GAM (mgcv) modelling...Error in > smooth.construct.tp.smooth.spec(object, dk$data, dk$knots) : > A term has fewer unique covariate combinations than specified maximum > degrees of freedom > Error in predict(model.bm, Data[, expl_var_names, drop = FALSE], > on_0_1000 > = TRUE) : > object 'model.bm' not found > > *** inherits(g.pred,'try-error') > ! Note : Lactuca.global_AllData_RUN1_GAM failed! > > I have 19 presences and 1019 pseudo-absences ... > It is because the low number of presences? > > Thanks > > Lara > > [[alternative HTML version deleted]] > > _______________________________________________ > R-sig-ecology mailing list > R-sig-ecology@r-project.org > > https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_r-2Dsig-2Decology&d=DwICAg&c=Cu5g146wZdoqVuKpTNsYHeFX_rg6kWhlkLF8Eft-wwo&r=aLEaSryyUcERVqcKVZl7lQ&m=2aNX9-kGSZ1EivodV2ZAVeJGY76pX4TqGpx2QXqsx00&s=-syyYDDESQAcvQx2Khl1KE_jbj3yBD2UqgKcFE4mBpw&e= > > > [[alternative HTML version deleted]] _______________________________________________ R-sig-ecology mailing list R-sig-ecology@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-ecology
