[Vegan-commits] r2115 - in pkg/vegan: R man tests/Examples
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Fri Mar 2 11:48:35 CET 2012
Author: jarioksa
Date: 2012-03-02 11:48:35 +0100 (Fri, 02 Mar 2012)
New Revision: 2115
Modified:
pkg/vegan/R/simper.R
pkg/vegan/man/simper.Rd
pkg/vegan/tests/Examples/vegan-Ex.Rout.save
Log:
Merge simper updates from pull request #6 at github.com
Modified: pkg/vegan/R/simper.R
===================================================================
--- pkg/vegan/R/simper.R 2012-03-01 14:34:17 UTC (rev 2114)
+++ pkg/vegan/R/simper.R 2012-03-02 10:48:35 UTC (rev 2115)
@@ -34,7 +34,7 @@
contr[(j-1)*n.a+k, ] <- md / sum(me)
}
}
- average <- colMeans(contr) * 100
+ average <- colMeans(contr)
if(nperm > 0){
if (trace)
@@ -51,7 +51,7 @@
contrp[(j-1)*n.a+k, ] <- mdp / sum(mep)
}
}
- perm.contr[ ,p] <- colMeans(contrp) * 100
+ perm.contr[ ,p] <- colMeans(contrp)
}
p <- (apply(apply(perm.contr, 2, function(x) x >= average), 1, sum) + 1) / (nperm + 1)
}
@@ -62,13 +62,13 @@
overall <- sum(average)
sdi <- apply(contr, 2, sd)
ratio <- average / sdi
- av.a <- colMeans(group.a)
- av.b <- colMeans(group.b)
+ ava <- colMeans(group.a)
+ avb <- colMeans(group.b)
ord <- order(average, decreasing = TRUE)
- cusum <- cumsum(average[ord] / overall * 100)
+ cusum <- cumsum(average[ord] / overall)
out <- list(species = colnames(comm), average = average,
- overall = overall, sd = sdi, ratio = ratio, ava = av.a,
- avb = av.b, ord = ord, cusum = cusum, p = p)
+ overall = overall, sd = sdi, ratio = ratio, ava = ava,
+ avb = avb, ord = ord, cusum = cusum, p = p)
outlist[[paste(comp[i,1], "_", comp[i,2], sep = "")]] <- out
}
attr(outlist, "permutations") <- nperm
@@ -86,7 +86,7 @@
names(cusum[[i]]) <- spec[[i]]
}
## this probably fails with empty or identical groups that have 0/0 = NaN
- out <- lapply(cusum, function(z) z[seq_len(min(which(z >= 70)))])
+ out <- lapply(cusum, function(z) z[seq_len(min(which(z >= 0.7)))])
print(out)
invisible(x)
}
@@ -105,7 +105,7 @@
}
}
else {
- out <- lapply(object, function(z) data.frame(cbind(contr = z$average, sd = z$sd, 'contr/sd' = z$ratio, av.a = z$ava, av.b = z$avb, p = z$p)))
+ out <- lapply(object, function(z) data.frame(cbind(contr = z$average, sd = z$sd, 'contr/sd' = z$ratio, ava = z$ava, avb = z$avb, p = z$p)))
}
attr(out, "digits") <- digits
attr(out, "permutations") <- attr(object, "permutations")
@@ -138,4 +138,4 @@
if ((np <- attr(x, "permutations")) > 0)
cat("P-values based on", np, "permutations\n")
invisible(x)
-}
+}
\ No newline at end of file
Modified: pkg/vegan/man/simper.Rd
===================================================================
--- pkg/vegan/man/simper.Rd 2012-03-01 14:34:17 UTC (rev 2114)
+++ pkg/vegan/man/simper.Rd 2012-03-02 10:48:35 UTC (rev 2115)
@@ -48,7 +48,7 @@
\eqn{d_{jk}=\sum_{i=1}^S d_{ijk}}{d[jk] = sum(i=1..S) d[ijk]}.
The \code{simper} functions performs pairwise comparisons of groups
- of sampling units and finds the average percentage contributions
+ of sampling units and finds the average contributions
of each species to the average overall Bray-Curtis dissimilarity.
The function displays most important species for each pair of
@@ -65,15 +65,15 @@
\value{
A list of class \code{"simper"} with following items:
\item{species}{The species names.}
- \item{average}{average contribution to overall dissimilarity.}
- \item{overall}{The overall between-group dissimilarity (times 100).}
- \item{sd}{standard deviation of contribution.}
- \item{ratio}{mean to sd ratio.}
- \item{ava, avb}{average abundances per group.}
+ \item{average}{Average contribution to overall dissimilarity.}
+ \item{overall}{The overall between-group dissimilarity.}
+ \item{sd}{Standard deviation of contribution.}
+ \item{ratio}{Average to sd ratio.}
+ \item{ava, avb}{Average abundances per group.}
\item{ord}{An index vector to order vectors by their contribution or
order \code{cusum} back to the original data order.}
- \item{cusum}{Ordered cumulative per cent contribution.}
- \item{p}{permutation \eqn{p}-value. Probability of getting a larger
+ \item{cusum}{Ordered cumulative contribution.}
+ \item{p}{Permutation \eqn{p}-value. Probability of getting a larger
or equal average contribution in random permutation of the group
factor.}
}
Modified: pkg/vegan/tests/Examples/vegan-Ex.Rout.save
===================================================================
--- pkg/vegan/tests/Examples/vegan-Ex.Rout.save 2012-03-01 14:34:17 UTC (rev 2114)
+++ pkg/vegan/tests/Examples/vegan-Ex.Rout.save 2012-03-02 10:48:35 UTC (rev 2115)
@@ -5998,246 +5998,240 @@
cumulative contributions of most influential species:
$BF_SF
- Agrsto Alogen Lolper Trirep Poatri Leoaut Brohor Achmil
- 9.824271 18.254830 25.956958 33.367870 40.734444 47.729205 53.120026 57.946526
- Plalan Elyrep Brarut
-62.522255 67.016196 71.098133
+ Agrsto Alogen Lolper Trirep Poatri Leoaut Brohor Achmil Plalan Elyrep Brarut
+0.09824271 0.18254830 0.25956958 0.33367870 0.40734444 0.47729205 0.53120026 0.57946526 0.62522255 0.67016196 0.71098133
$BF_HF
- Rumace Poatri Plalan Brohor Lolper Elyrep Trirep Antodo
- 8.163219 15.193797 21.918333 27.967181 33.969561 39.843338 45.298204 50.276849
- Achmil Brarut Alogen Tripra Junart
-55.222648 60.021994 64.584333 69.126471 73.366621
+ Rumace Poatri Plalan Brohor Lolper Elyrep Trirep Antodo Achmil Brarut Alogen Tripra
+0.08163219 0.15193797 0.21918333 0.27967181 0.33969561 0.39843338 0.45298204 0.50276849 0.55222648 0.60021994 0.64584333 0.69126471
+ Junart
+0.73366621
$BF_NM
- Lolper Poatri Poapra Trirep Brohor Brarut Elepal Agrsto
-12.42718 19.92126 27.11756 34.14609 39.58520 44.48077 49.10724 53.69083
- Achmil Leoaut Antodo Plalan
-58.23926 62.53645 66.38182 70.12577
+ Lolper Poatri Poapra Trirep Brohor Brarut Elepal Agrsto Achmil Leoaut Antodo Plalan
+0.1242718 0.1992126 0.2711756 0.3414609 0.3958520 0.4448077 0.4910724 0.5369083 0.5823926 0.6253645 0.6638182 0.7012577
$SF_HF
- Agrsto Alogen Lolper Plalan Rumace Elyrep Poatri Brarut
- 8.350879 16.534834 23.934930 30.843624 37.716139 43.334492 48.351753 52.804045
- Elepal Poapra Antodo Sagpro Tripra
-57.205850 61.423981 65.549838 69.628951 73.696831
+ Agrsto Alogen Lolper Plalan Rumace Elyrep Poatri Brarut Elepal Poapra Antodo Sagpro
+0.08350879 0.16534834 0.23934930 0.30843624 0.37716139 0.43334492 0.48351753 0.52804045 0.57205850 0.61423981 0.65549838 0.69628951
+ Tripra
+0.73696831
$SF_NM
- Poatri Alogen Agrsto Lolper Elepal Poapra Brarut Elyrep
-10.13601 19.35731 26.67383 33.77578 39.99419 45.26707 50.44725 55.05643
- Leoaut Trirep Sagpro Salrep
-59.26117 63.20111 67.12478 70.91528
+ Poatri Alogen Agrsto Lolper Elepal Poapra Brarut Elyrep Leoaut Trirep Sagpro Salrep
+0.1013601 0.1935731 0.2667383 0.3377578 0.3999419 0.4526707 0.5044725 0.5505643 0.5926117 0.6320111 0.6712478 0.7091528
$HF_NM
- Poatri Lolper Rumace Poapra Plalan Brarut Elepal Agrsto
- 9.913221 17.468460 23.917190 29.701331 35.469313 40.365488 44.804851 49.226546
- Trirep Elyrep Antodo Junart Tripra Salrep
-53.434466 57.564661 61.543243 65.341300 68.921695 72.432408
+ Poatri Lolper Rumace Poapra Plalan Brarut Elepal Agrsto Trirep Elyrep Antodo Junart
+0.09913221 0.17468460 0.23917190 0.29701331 0.35469313 0.40365488 0.44804851 0.49226546 0.53434466 0.57564661 0.61543243 0.65341300
+ Tripra Salrep
+0.68921695 0.72432408
> summary(sim)
Contrast: BF_SF
- contr sd ratio av.a av.b cumsum
-Agrsto 6.1374 0.034193 179.49 0.0000 4.6667 9.824
-Alogen 5.2667 0.036476 144.39 0.6667 4.3333 18.255
-Lolper 4.8116 0.039445 121.98 6.0000 3.0000 25.957
-Trirep 4.6297 0.025525 181.38 4.6667 1.3333 33.368
-Poatri 4.6020 0.033801 136.15 3.6667 4.6667 40.734
-Leoaut 4.3697 0.024922 175.34 4.3333 1.3333 47.729
-Brohor 3.3677 0.025860 130.23 2.6667 0.5000 53.120
-Achmil 3.0152 0.020821 144.82 2.3333 0.1667 57.947
-Plalan 2.8585 0.021549 132.65 2.0000 0.0000 62.522
-Elyrep 2.8074 0.029778 94.28 1.3333 2.0000 67.016
-Brarut 2.5501 0.023902 106.69 2.0000 2.0000 71.098
-Poapra 2.5129 0.023967 104.85 4.0000 2.5000 75.121
-Sagpro 2.4326 0.022149 109.83 0.6667 1.8333 79.014
-Belper 1.9859 0.017088 116.22 1.6667 0.6667 82.193
-Elepal 1.8611 0.042958 43.33 0.0000 1.3333 85.172
-Antodo 1.7543 0.025804 67.98 1.3333 0.0000 87.981
-Junbuf 1.6031 0.023708 67.62 0.0000 1.1667 90.547
-Viclat 1.4671 0.013306 110.26 1.0000 0.0000 92.895
-Hyprad 1.0286 0.015198 67.68 0.6667 0.0000 94.542
-Ranfla 0.9306 0.013595 68.45 0.0000 0.6667 96.031
-Junart 0.6979 0.016109 43.33 0.0000 0.5000 97.148
-Calcus 0.6979 0.016109 43.33 0.0000 0.5000 98.266
-Rumace 0.4526 0.010444 43.33 0.0000 0.3333 98.990
-Cirarv 0.3983 0.009185 43.36 0.0000 0.3333 99.628
-Chealb 0.2326 0.005370 43.33 0.0000 0.1667 100.000
-Empnig 0.0000 0.000000 NaN 0.0000 0.0000 100.000
-Airpra 0.0000 0.000000 NaN 0.0000 0.0000 100.000
-Potpal 0.0000 0.000000 NaN 0.0000 0.0000 100.000
-Tripra 0.0000 0.000000 NaN 0.0000 0.0000 100.000
-Salrep 0.0000 0.000000 NaN 0.0000 0.0000 100.000
+ contr sd ratio av.a av.b cumsum
+Agrsto 0.061374 0.034193 1.7949 0.0000 4.6667 0.09824
+Alogen 0.052667 0.036476 1.4439 0.6667 4.3333 0.18255
+Lolper 0.048116 0.039445 1.2198 6.0000 3.0000 0.25957
+Trirep 0.046297 0.025525 1.8138 4.6667 1.3333 0.33368
+Poatri 0.046020 0.033801 1.3615 3.6667 4.6667 0.40734
+Leoaut 0.043697 0.024922 1.7534 4.3333 1.3333 0.47729
+Brohor 0.033677 0.025860 1.3023 2.6667 0.5000 0.53120
+Achmil 0.030152 0.020821 1.4482 2.3333 0.1667 0.57947
+Plalan 0.028585 0.021549 1.3265 2.0000 0.0000 0.62522
+Elyrep 0.028074 0.029778 0.9428 1.3333 2.0000 0.67016
+Brarut 0.025501 0.023902 1.0669 2.0000 2.0000 0.71098
+Poapra 0.025129 0.023967 1.0485 4.0000 2.5000 0.75121
+Sagpro 0.024326 0.022149 1.0983 0.6667 1.8333 0.79014
+Belper 0.019859 0.017088 1.1622 1.6667 0.6667 0.82193
+Elepal 0.018611 0.042958 0.4333 0.0000 1.3333 0.85172
+Antodo 0.017543 0.025804 0.6798 1.3333 0.0000 0.87981
+Junbuf 0.016031 0.023708 0.6762 0.0000 1.1667 0.90547
+Viclat 0.014671 0.013306 1.1026 1.0000 0.0000 0.92895
+Hyprad 0.010286 0.015198 0.6768 0.6667 0.0000 0.94542
+Ranfla 0.009306 0.013595 0.6845 0.0000 0.6667 0.96031
+Junart 0.006979 0.016109 0.4333 0.0000 0.5000 0.97148
+Calcus 0.006979 0.016109 0.4333 0.0000 0.5000 0.98266
+Rumace 0.004526 0.010444 0.4333 0.0000 0.3333 0.98990
+Cirarv 0.003983 0.009185 0.4336 0.0000 0.3333 0.99628
+Chealb 0.002326 0.005370 0.4333 0.0000 0.1667 1.00000
+Empnig 0.000000 0.000000 NaN 0.0000 0.0000 1.00000
+Airpra 0.000000 0.000000 NaN 0.0000 0.0000 1.00000
+Potpal 0.000000 0.000000 NaN 0.0000 0.0000 1.00000
+Tripra 0.000000 0.000000 NaN 0.0000 0.0000 1.00000
+Salrep 0.000000 0.000000 NaN 0.0000 0.0000 1.00000
Contrast: BF_HF
- contr sd ratio av.a av.b cumsum
-Rumace 3.8666 0.02606 148.38 0.0000 3.2 8.163
-Poatri 3.3301 0.02579 129.11 3.6667 4.8 15.194
-Plalan 3.1852 0.01830 174.01 2.0000 3.0 21.918
-Brohor 2.8651 0.01799 159.26 2.6667 0.8 27.967
-Lolper 2.8431 0.02215 128.34 6.0000 4.0 33.970
-Elyrep 2.7822 0.02959 94.04 1.3333 2.0 39.843
-Trirep 2.5838 0.01656 156.03 4.6667 2.8 45.298
-Antodo 2.3582 0.02042 115.47 1.3333 1.8 50.277
-Achmil 2.3426 0.01474 158.93 2.3333 1.2 55.223
-Brarut 2.2733 0.01802 126.17 2.0000 2.8 60.022
-Alogen 2.1610 0.02308 93.63 0.6667 1.6 64.584
-Tripra 2.1514 0.02207 97.47 0.0000 1.8 69.126
-Junart 2.0084 0.02555 78.60 0.0000 1.6 73.367
-Leoaut 1.9318 0.01356 142.41 4.3333 2.8 77.445
-Belper 1.8290 0.01486 123.05 1.6667 0.4 81.306
-Agrsto 1.7605 0.02284 77.08 0.0000 1.4 85.023
-Junbuf 1.5000 0.02066 72.60 0.0000 1.2 88.190
-Viclat 1.2848 0.01140 112.74 1.0000 0.0 90.903
-Sagpro 1.1685 0.01297 90.08 0.6667 0.8 93.369
-Elepal 1.0169 0.02111 48.17 0.0000 0.8 95.516
-Hyprad 0.8950 0.01312 68.24 0.6667 0.0 97.406
-Poapra 0.7203 0.01010 71.33 4.0000 3.4 98.927
-Ranfla 0.5084 0.01055 48.17 0.0000 0.4 100.000
-Empnig 0.0000 0.00000 NaN 0.0000 0.0 100.000
-Airpra 0.0000 0.00000 NaN 0.0000 0.0 100.000
-Cirarv 0.0000 0.00000 NaN 0.0000 0.0 100.000
-Potpal 0.0000 0.00000 NaN 0.0000 0.0 100.000
-Calcus 0.0000 0.00000 NaN 0.0000 0.0 100.000
-Salrep 0.0000 0.00000 NaN 0.0000 0.0 100.000
-Chealb 0.0000 0.00000 NaN 0.0000 0.0 100.000
+ contr sd ratio av.a av.b cumsum
+Rumace 0.038666 0.02606 1.4838 0.0000 3.2 0.08163
+Poatri 0.033301 0.02579 1.2911 3.6667 4.8 0.15194
+Plalan 0.031852 0.01830 1.7401 2.0000 3.0 0.21918
+Brohor 0.028651 0.01799 1.5926 2.6667 0.8 0.27967
+Lolper 0.028431 0.02215 1.2834 6.0000 4.0 0.33970
+Elyrep 0.027822 0.02959 0.9404 1.3333 2.0 0.39843
+Trirep 0.025838 0.01656 1.5603 4.6667 2.8 0.45298
+Antodo 0.023582 0.02042 1.1547 1.3333 1.8 0.50277
+Achmil 0.023426 0.01474 1.5893 2.3333 1.2 0.55223
+Brarut 0.022733 0.01802 1.2617 2.0000 2.8 0.60022
+Alogen 0.021610 0.02308 0.9363 0.6667 1.6 0.64584
+Tripra 0.021514 0.02207 0.9747 0.0000 1.8 0.69126
+Junart 0.020084 0.02555 0.7860 0.0000 1.6 0.73367
+Leoaut 0.019318 0.01356 1.4241 4.3333 2.8 0.77445
+Belper 0.018290 0.01486 1.2305 1.6667 0.4 0.81306
+Agrsto 0.017605 0.02284 0.7708 0.0000 1.4 0.85023
+Junbuf 0.015000 0.02066 0.7260 0.0000 1.2 0.88190
+Viclat 0.012848 0.01140 1.1274 1.0000 0.0 0.90903
+Sagpro 0.011685 0.01297 0.9008 0.6667 0.8 0.93369
+Elepal 0.010169 0.02111 0.4817 0.0000 0.8 0.95516
+Hyprad 0.008950 0.01312 0.6824 0.6667 0.0 0.97406
+Poapra 0.007203 0.01010 0.7133 4.0000 3.4 0.98927
+Ranfla 0.005084 0.01055 0.4817 0.0000 0.4 1.00000
+Empnig 0.000000 0.00000 NaN 0.0000 0.0 1.00000
+Airpra 0.000000 0.00000 NaN 0.0000 0.0 1.00000
+Cirarv 0.000000 0.00000 NaN 0.0000 0.0 1.00000
+Potpal 0.000000 0.00000 NaN 0.0000 0.0 1.00000
+Calcus 0.000000 0.00000 NaN 0.0000 0.0 1.00000
+Salrep 0.000000 0.00000 NaN 0.0000 0.0 1.00000
+Chealb 0.000000 0.00000 NaN 0.0000 0.0 1.00000
Contrast: BF_NM
- contr sd ratio av.a av.b cumsum
-Lolper 9.0681 0.02644 342.92 6.0000 0.3333 12.43
-Poatri 5.4684 0.04465 122.48 3.6667 0.0000 19.92
-Poapra 5.2511 0.01813 289.66 4.0000 0.6667 27.12
-Trirep 5.1287 0.02756 186.11 4.6667 1.8333 34.15
-Brohor 3.9689 0.02920 135.90 2.6667 0.0000 39.59
-Brarut 3.5723 0.02869 124.52 2.0000 2.8333 44.48
-Elepal 3.3759 0.03573 94.49 0.0000 2.1667 49.11
-Agrsto 3.3446 0.03473 96.30 0.0000 2.1667 53.69
-Achmil 3.3190 0.02338 141.98 2.3333 0.3333 58.24
-Leoaut 3.1356 0.02026 154.80 4.3333 3.1667 62.54
-Antodo 2.8060 0.03295 85.17 1.3333 1.3333 66.38
-Plalan 2.7319 0.02193 124.58 2.0000 0.8333 70.13
-Salrep 2.6770 0.02927 91.45 0.0000 1.8333 73.79
-Belper 2.3529 0.01909 123.22 1.6667 0.3333 77.02
-Hyprad 2.1721 0.02450 88.64 0.6667 1.1667 80.00
-Ranfla 2.0314 0.02275 89.28 0.0000 1.3333 82.78
-Elyrep 1.9993 0.02926 68.33 1.3333 0.0000 85.52
-Calcus 1.7833 0.02681 66.53 0.0000 1.1667 87.96
-Junart 1.7694 0.02600 68.06 0.0000 1.1667 90.39
-Viclat 1.5773 0.01447 109.02 1.0000 0.1667 92.55
-Sagpro 1.5432 0.01857 83.10 0.6667 0.5000 94.66
-Airpra 1.3410 0.01969 68.09 0.0000 0.8333 96.50
-Potpal 1.0739 0.01571 68.35 0.0000 0.6667 97.97
-Alogen 0.9997 0.01463 68.33 0.6667 0.0000 99.34
-Empnig 0.4787 0.01105 43.32 0.0000 0.3333 100.00
-Junbuf 0.0000 0.00000 NaN 0.0000 0.0000 100.00
-Rumace 0.0000 0.00000 NaN 0.0000 0.0000 100.00
-Cirarv 0.0000 0.00000 NaN 0.0000 0.0000 100.00
-Tripra 0.0000 0.00000 NaN 0.0000 0.0000 100.00
-Chealb 0.0000 0.00000 NaN 0.0000 0.0000 100.00
+ contr sd ratio av.a av.b cumsum
+Lolper 0.090681 0.02644 3.4292 6.0000 0.3333 0.1243
+Poatri 0.054684 0.04465 1.2248 3.6667 0.0000 0.1992
+Poapra 0.052511 0.01813 2.8966 4.0000 0.6667 0.2712
+Trirep 0.051287 0.02756 1.8611 4.6667 1.8333 0.3415
+Brohor 0.039689 0.02920 1.3590 2.6667 0.0000 0.3959
+Brarut 0.035723 0.02869 1.2452 2.0000 2.8333 0.4448
+Elepal 0.033759 0.03573 0.9449 0.0000 2.1667 0.4911
+Agrsto 0.033446 0.03473 0.9630 0.0000 2.1667 0.5369
+Achmil 0.033190 0.02338 1.4198 2.3333 0.3333 0.5824
+Leoaut 0.031356 0.02026 1.5480 4.3333 3.1667 0.6254
+Antodo 0.028060 0.03295 0.8517 1.3333 1.3333 0.6638
+Plalan 0.027319 0.02193 1.2458 2.0000 0.8333 0.7013
+Salrep 0.026770 0.02927 0.9145 0.0000 1.8333 0.7379
+Belper 0.023529 0.01909 1.2322 1.6667 0.3333 0.7702
+Hyprad 0.021721 0.02450 0.8864 0.6667 1.1667 0.8000
+Ranfla 0.020314 0.02275 0.8928 0.0000 1.3333 0.8278
+Elyrep 0.019993 0.02926 0.6833 1.3333 0.0000 0.8552
+Calcus 0.017833 0.02681 0.6653 0.0000 1.1667 0.8796
+Junart 0.017694 0.02600 0.6806 0.0000 1.1667 0.9039
+Viclat 0.015773 0.01447 1.0902 1.0000 0.1667 0.9255
+Sagpro 0.015432 0.01857 0.8310 0.6667 0.5000 0.9466
+Airpra 0.013410 0.01969 0.6809 0.0000 0.8333 0.9650
+Potpal 0.010739 0.01571 0.6835 0.0000 0.6667 0.9797
+Alogen 0.009997 0.01463 0.6833 0.6667 0.0000 0.9934
+Empnig 0.004787 0.01105 0.4332 0.0000 0.3333 1.0000
+Junbuf 0.000000 0.00000 NaN 0.0000 0.0000 1.0000
+Rumace 0.000000 0.00000 NaN 0.0000 0.0000 1.0000
+Cirarv 0.000000 0.00000 NaN 0.0000 0.0000 1.0000
+Tripra 0.000000 0.00000 NaN 0.0000 0.0000 1.0000
+Chealb 0.000000 0.00000 NaN 0.0000 0.0000 1.0000
Contrast: SF_HF
- contr sd ratio av.a av.b cumsum
-Agrsto 4.7380 0.031273 151.51 4.6667 1.4 8.351
-Alogen 4.6433 0.032897 141.15 4.3333 1.6 16.535
-Lolper 4.1986 0.027007 155.46 3.0000 4.0 23.935
-Plalan 3.9198 0.033208 118.04 0.0000 3.0 30.844
-Rumace 3.8992 0.027369 142.47 0.3333 3.2 37.716
-Elyrep 3.1877 0.029550 107.87 2.0000 2.0 43.334
-Poatri 2.8466 0.021522 132.27 4.6667 4.8 48.352
-Brarut 2.5261 0.021044 120.04 2.0000 2.8 52.804
-Elepal 2.4974 0.038877 64.24 1.3333 0.8 57.206
-Poapra 2.3932 0.019180 124.78 2.5000 3.4 61.424
-Antodo 2.3409 0.021430 109.23 0.0000 1.8 65.550
-Sagpro 2.3144 0.020479 113.01 1.8333 0.8 69.629
-Tripra 2.3080 0.023432 98.50 0.0000 1.8 73.697
-Junart 2.2850 0.025677 88.99 0.5000 1.6 77.724
-Trirep 2.2383 0.019487 114.86 1.3333 2.8 81.669
-Junbuf 2.1643 0.022237 97.33 1.1667 1.2 85.484
-Leoaut 2.0509 0.016422 124.89 1.3333 2.8 89.099
-Achmil 1.5183 0.011393 133.26 0.1667 1.2 91.775
-Brohor 1.3375 0.014504 92.22 0.5000 0.8 94.132
-Ranfla 1.0661 0.013387 79.64 0.6667 0.4 96.011
-Belper 0.9991 0.012571 79.48 0.6667 0.4 97.772
-Calcus 0.6623 0.015076 43.93 0.5000 0.0 98.939
-Cirarv 0.3809 0.008669 43.94 0.3333 0.0 99.611
-Chealb 0.2208 0.005025 43.93 0.1667 0.0 100.000
-Empnig 0.0000 0.000000 NaN 0.0000 0.0 100.000
-Airpra 0.0000 0.000000 NaN 0.0000 0.0 100.000
-Viclat 0.0000 0.000000 NaN 0.0000 0.0 100.000
-Hyprad 0.0000 0.000000 NaN 0.0000 0.0 100.000
-Potpal 0.0000 0.000000 NaN 0.0000 0.0 100.000
-Salrep 0.0000 0.000000 NaN 0.0000 0.0 100.000
+ contr sd ratio av.a av.b cumsum
+Agrsto 0.047380 0.031273 1.5151 4.6667 1.4 0.08351
+Alogen 0.046433 0.032897 1.4115 4.3333 1.6 0.16535
+Lolper 0.041986 0.027007 1.5546 3.0000 4.0 0.23935
+Plalan 0.039198 0.033208 1.1804 0.0000 3.0 0.30844
+Rumace 0.038992 0.027369 1.4247 0.3333 3.2 0.37716
+Elyrep 0.031877 0.029550 1.0787 2.0000 2.0 0.43334
+Poatri 0.028466 0.021522 1.3227 4.6667 4.8 0.48352
+Brarut 0.025261 0.021044 1.2004 2.0000 2.8 0.52804
+Elepal 0.024974 0.038877 0.6424 1.3333 0.8 0.57206
+Poapra 0.023932 0.019180 1.2478 2.5000 3.4 0.61424
+Antodo 0.023409 0.021430 1.0923 0.0000 1.8 0.65550
+Sagpro 0.023144 0.020479 1.1301 1.8333 0.8 0.69629
+Tripra 0.023080 0.023432 0.9850 0.0000 1.8 0.73697
+Junart 0.022850 0.025677 0.8899 0.5000 1.6 0.77724
+Trirep 0.022383 0.019487 1.1486 1.3333 2.8 0.81669
+Junbuf 0.021643 0.022237 0.9733 1.1667 1.2 0.85484
+Leoaut 0.020509 0.016422 1.2489 1.3333 2.8 0.89099
+Achmil 0.015183 0.011393 1.3326 0.1667 1.2 0.91775
+Brohor 0.013375 0.014504 0.9222 0.5000 0.8 0.94132
+Ranfla 0.010661 0.013387 0.7964 0.6667 0.4 0.96011
+Belper 0.009991 0.012571 0.7948 0.6667 0.4 0.97772
+Calcus 0.006623 0.015076 0.4393 0.5000 0.0 0.98939
+Cirarv 0.003809 0.008669 0.4394 0.3333 0.0 0.99611
+Chealb 0.002208 0.005025 0.4393 0.1667 0.0 1.00000
+Empnig 0.000000 0.000000 NaN 0.0000 0.0 1.00000
+Airpra 0.000000 0.000000 NaN 0.0000 0.0 1.00000
+Viclat 0.000000 0.000000 NaN 0.0000 0.0 1.00000
+Hyprad 0.000000 0.000000 NaN 0.0000 0.0 1.00000
+Potpal 0.000000 0.000000 NaN 0.0000 0.0 1.00000
+Salrep 0.000000 0.000000 NaN 0.0000 0.0 1.00000
Contrast: SF_NM
- contr sd ratio av.a av.b cumsum
-Poatri 7.8284 0.040947 191.18 4.6667 0.0000 10.14
-Alogen 7.1219 0.046958 151.67 4.3333 0.0000 19.36
-Agrsto 5.6508 0.044176 127.92 4.6667 2.1667 26.67
-Lolper 5.4851 0.059914 91.55 3.0000 0.3333 33.78
-Elepal 4.8027 0.047168 101.82 1.3333 2.1667 39.99
-Poapra 4.0724 0.031790 128.10 2.5000 0.6667 45.27
-Brarut 4.0008 0.034398 116.31 2.0000 2.8333 50.45
-Elyrep 3.5598 0.038515 92.43 2.0000 0.0000 55.06
-Leoaut 3.2475 0.034813 93.28 1.3333 3.1667 59.26
-Trirep 3.0430 0.031634 96.19 1.3333 1.8333 63.20
-Sagpro 3.0304 0.030477 99.43 1.8333 0.5000 67.12
-Salrep 2.9275 0.032014 91.44 0.0000 1.8333 70.92
-Antodo 2.4541 0.036694 66.88 0.0000 1.3333 74.09
-Calcus 2.2763 0.029443 77.31 0.5000 1.1667 77.04
-Ranfla 2.2566 0.022819 98.89 0.6667 1.3333 79.96
-Junart 2.2543 0.028598 78.83 0.5000 1.1667 82.88
-Hyprad 2.0108 0.031291 64.26 0.0000 1.1667 85.48
-Junbuf 1.9860 0.029034 68.40 1.1667 0.0000 88.06
-Plalan 1.5420 0.022769 67.72 0.0000 0.8333 90.05
-Airpra 1.4883 0.021881 68.02 0.0000 0.8333 91.98
-Belper 1.2317 0.015921 77.37 0.6667 0.3333 93.57
-Potpal 1.1883 0.017407 68.26 0.0000 0.6667 95.11
-Achmil 0.9294 0.014931 62.24 0.1667 0.3333 96.32
-Brohor 0.7172 0.016333 43.91 0.5000 0.0000 97.24
-Rumace 0.5590 0.012751 43.84 0.3333 0.0000 97.97
-Empnig 0.5225 0.012001 43.54 0.0000 0.3333 98.64
-Cirarv 0.4782 0.010889 43.91 0.3333 0.0000 99.26
-Chealb 0.2893 0.006602 43.82 0.1667 0.0000 99.64
-Viclat 0.2792 0.006425 43.45 0.0000 0.1667 100.00
-Tripra 0.0000 0.000000 NaN 0.0000 0.0000 100.00
+ contr sd ratio av.a av.b cumsum
+Poatri 0.078284 0.040947 1.9118 4.6667 0.0000 0.1014
+Alogen 0.071219 0.046958 1.5167 4.3333 0.0000 0.1936
+Agrsto 0.056508 0.044176 1.2792 4.6667 2.1667 0.2667
+Lolper 0.054851 0.059914 0.9155 3.0000 0.3333 0.3378
+Elepal 0.048027 0.047168 1.0182 1.3333 2.1667 0.3999
+Poapra 0.040724 0.031790 1.2810 2.5000 0.6667 0.4527
+Brarut 0.040008 0.034398 1.1631 2.0000 2.8333 0.5045
+Elyrep 0.035598 0.038515 0.9243 2.0000 0.0000 0.5506
+Leoaut 0.032475 0.034813 0.9328 1.3333 3.1667 0.5926
+Trirep 0.030430 0.031634 0.9619 1.3333 1.8333 0.6320
+Sagpro 0.030304 0.030477 0.9943 1.8333 0.5000 0.6712
+Salrep 0.029275 0.032014 0.9144 0.0000 1.8333 0.7092
+Antodo 0.024541 0.036694 0.6688 0.0000 1.3333 0.7409
+Calcus 0.022763 0.029443 0.7731 0.5000 1.1667 0.7704
+Ranfla 0.022566 0.022819 0.9889 0.6667 1.3333 0.7996
+Junart 0.022543 0.028598 0.7883 0.5000 1.1667 0.8288
+Hyprad 0.020108 0.031291 0.6426 0.0000 1.1667 0.8548
+Junbuf 0.019860 0.029034 0.6840 1.1667 0.0000 0.8806
+Plalan 0.015420 0.022769 0.6772 0.0000 0.8333 0.9005
+Airpra 0.014883 0.021881 0.6802 0.0000 0.8333 0.9198
+Belper 0.012317 0.015921 0.7737 0.6667 0.3333 0.9357
+Potpal 0.011883 0.017407 0.6826 0.0000 0.6667 0.9511
+Achmil 0.009294 0.014931 0.6224 0.1667 0.3333 0.9632
+Brohor 0.007172 0.016333 0.4391 0.5000 0.0000 0.9724
+Rumace 0.005590 0.012751 0.4384 0.3333 0.0000 0.9797
+Empnig 0.005225 0.012001 0.4354 0.0000 0.3333 0.9864
+Cirarv 0.004782 0.010889 0.4391 0.3333 0.0000 0.9926
+Chealb 0.002893 0.006602 0.4382 0.1667 0.0000 0.9964
+Viclat 0.002792 0.006425 0.4345 0.0000 0.1667 1.0000
+Tripra 0.000000 0.000000 NaN 0.0000 0.0000 1.0000
Contrast: HF_NM
- contr sd ratio av.a av.b cumsum
-Poatri 7.1553 0.013681 523.02 4.8 0.0000 9.913
-Lolper 5.4533 0.029625 184.08 4.0 0.3333 17.468
-Rumace 4.6546 0.030806 151.09 3.2 0.0000 23.917
-Poapra 4.1750 0.018852 221.46 3.4 0.6667 29.701
-Plalan 4.1633 0.029560 140.84 3.0 0.8333 35.469
-Brarut 3.5340 0.020104 175.79 2.8 2.8333 40.365
-Elepal 3.2043 0.032315 99.16 0.8 2.1667 44.805
-Agrsto 3.1915 0.028887 110.48 1.4 2.1667 49.227
-Trirep 3.0372 0.022871 132.80 2.8 1.8333 53.434
-Elyrep 2.9811 0.038676 77.08 2.0 0.0000 57.565
-Antodo 2.8717 0.024799 115.80 1.8 1.3333 61.543
-Junart 2.7414 0.028537 96.07 1.6 1.1667 65.341
-Tripra 2.5843 0.025972 99.51 1.8 0.0000 68.922
-Salrep 2.5340 0.027291 92.85 0.0 1.8333 72.432
-Alogen 2.4459 0.032399 75.49 1.6 0.0000 75.821
-Leoaut 2.0703 0.014125 146.58 2.8 3.1667 78.689
-Ranfla 1.9285 0.019939 96.72 0.4 1.3333 81.361
-Junbuf 1.8181 0.024648 73.76 1.2 0.0000 83.880
-Hyprad 1.7141 0.026548 64.57 0.0 1.1667 86.255
-Calcus 1.6833 0.024901 67.60 0.0 1.1667 88.587
-Achmil 1.6555 0.014900 111.11 1.2 0.3333 90.881
-Sagpro 1.5282 0.016535 92.43 0.8 0.5000 92.998
-Airpra 1.2605 0.018243 69.10 0.0 0.8333 94.744
-Brohor 1.2094 0.015169 79.73 0.8 0.0000 96.420
-Potpal 1.0105 0.014556 69.42 0.0 0.6667 97.820
-Belper 0.8801 0.013732 64.09 0.4 0.3333 99.039
-Empnig 0.4536 0.010325 43.93 0.0 0.3333 99.668
-Viclat 0.2399 0.005461 43.93 0.0 0.1667 100.000
-Cirarv 0.0000 0.000000 NaN 0.0 0.0000 100.000
-Chealb 0.0000 0.000000 NaN 0.0 0.0000 100.000
+ contr sd ratio av.a av.b cumsum
+Poatri 0.071553 0.013681 5.2302 4.8 0.0000 0.09913
+Lolper 0.054533 0.029625 1.8408 4.0 0.3333 0.17468
+Rumace 0.046546 0.030806 1.5109 3.2 0.0000 0.23917
+Poapra 0.041750 0.018852 2.2146 3.4 0.6667 0.29701
+Plalan 0.041633 0.029560 1.4084 3.0 0.8333 0.35469
+Brarut 0.035340 0.020104 1.7579 2.8 2.8333 0.40365
+Elepal 0.032043 0.032315 0.9916 0.8 2.1667 0.44805
+Agrsto 0.031915 0.028887 1.1048 1.4 2.1667 0.49227
+Trirep 0.030372 0.022871 1.3280 2.8 1.8333 0.53434
+Elyrep 0.029811 0.038676 0.7708 2.0 0.0000 0.57565
+Antodo 0.028717 0.024799 1.1580 1.8 1.3333 0.61543
+Junart 0.027414 0.028537 0.9607 1.6 1.1667 0.65341
+Tripra 0.025843 0.025972 0.9951 1.8 0.0000 0.68922
+Salrep 0.025340 0.027291 0.9285 0.0 1.8333 0.72432
+Alogen 0.024459 0.032399 0.7549 1.6 0.0000 0.75821
+Leoaut 0.020703 0.014125 1.4658 2.8 3.1667 0.78689
+Ranfla 0.019285 0.019939 0.9672 0.4 1.3333 0.81361
+Junbuf 0.018181 0.024648 0.7376 1.2 0.0000 0.83880
+Hyprad 0.017141 0.026548 0.6457 0.0 1.1667 0.86255
+Calcus 0.016833 0.024901 0.6760 0.0 1.1667 0.88587
+Achmil 0.016555 0.014900 1.1111 1.2 0.3333 0.90881
+Sagpro 0.015282 0.016535 0.9243 0.8 0.5000 0.92998
+Airpra 0.012605 0.018243 0.6910 0.0 0.8333 0.94744
+Brohor 0.012094 0.015169 0.7973 0.8 0.0000 0.96420
+Potpal 0.010105 0.014556 0.6942 0.0 0.6667 0.97820
+Belper 0.008801 0.013732 0.6409 0.4 0.3333 0.99039
+Empnig 0.004536 0.010325 0.4393 0.0 0.3333 0.99668
+Viclat 0.002399 0.005461 0.4393 0.0 0.1667 1.00000
+Cirarv 0.000000 0.000000 NaN 0.0 0.0000 1.00000
+Chealb 0.000000 0.000000 NaN 0.0 0.0000 1.00000
>
>
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