Hi R-experts,
I am using the envfit function over an ordination of floristic data.
The problem is that every time that I run it changes the results. Sometimes
dramatically, selecting variables that the first time were not significant.
I do not get what could be the problem or if is normal given the
permutations are different.
# the NMDS ordination
gap_flor_NMDS_chord <- metaMDS(gaps_flor, distance = "euclid", k = 2, trymax
= 20, autotransform =TRUE,
noshare = 0.1, wascores = TRUE, expand = TRUE, trace = 1,
plot = FALSE, old.wa = FALSE, zerodist = "add")
# the environmental variables to use with enfit
explain1<- site[c("Tipo", "Gap.size", "Gap diameter (m)", "Size.cat",
"altitud", "Slope (%)",
"Exp.deg", "form","formcont", "largo_medio_gmak_m", "Dom.Hight",
"d_m_gapmak_cm", "Cat_edad",
"uprooted_perc", "Snapped gap maker (%)", "stand_dead_perc",
"controlled_perc",
"nodet_orig_gmkr_perc", "Total_borde", "PACL_diff_warm045",
"rock", "musg_hep", "mantillo", "sm", "tronco_tot", "Time.ctr",
"mf_gmk_perc",
"fm_gmk", "dc_gmk_perc", "be_gmk_perc", "ach_gmk_perc",
"nodet_spp_gmkr_perc",
"Myrceugenia as border tree (%)", "Fm_borde.", "Dc_borde.", "Be_borde.",
"Rv_borde.",
"Aristotelia as border tree (%)")]
# the Envfit calculation
exp_flor1 <- envfit(gap_flor_NMDS_chord, explain1, permu = 999, na.rm=T)
Thanks a lot for your help, comments and input!
-----
Rodrigo Vargas G.
-----------------------------------------
Silviculture Institute
Freiburg University
--
View this message in context:
http://r.789695.n4.nabble.com/Envfit-inconsistant-result-tp3836585p3836585.html
Sent from the R help mailing list archive at Nabble.com.
______________________________________________
R-help@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
