Hello,
so I'm relatively new in R, but normally i don't have big problems by using
R.
But today i struggle a lot with an error message that occurred the first
time.
Error in sort.int(x, na.last = na.last, decreasing = decreasing, ...) :
'x' must be atomic
I'm using just a normal anosim function and 2 weeks ago it was working fine
with the same files and the same script. So maybe some of you can help me.
Here is the total script:
> data <-read.csv("H:\\PhD\\Ergebnisse Versuch Norwegen\\T-RFLP\\nirK
> Adonis2.csv")
> fix (data)
> data1 <- (data [,-1])
> fix (data1)
> cca.env<- read.csv ("H:\\PhD\\Ergebnisse Versuch
> Norwegen\\T-RFLP\\env2.csv",
+ header= TRUE, )
> fix(cca.env)
> du<- vegdist(data)
> fix(du)
> attach(cca.env)
> dune.ano <- anosim(du, Sample)
> summary(dune.ano)
Call:
anosim(dat = du, grouping = Sample)
Dissimilarity: bray
ANOSIM statistic R:
Significance: 0.001
Permutation: free
Number of permutations: 999
Error in sort.int(x, na.last = na.last, decreasing = decreasing, ...) :
'x' must be atomic
it is more or less exactly the same matrix than in the example from R:
> data(dune)
> fix(dune)
> data(dune.env)
> fix(dune.env)
> dune.dist <- vegdist(dune)
> attach(dune.env)
> dune.ano <- anosim(dune.dist, Management)
> summary(dune.ano)
Call:
anosim(dat = dune.dist, grouping = Management)
Dissimilarity: bray
ANOSIM statistic R: 0.2579
Significance: 0.008
Permutation: free
Number of permutations: 999
Upper quantiles of permutations (null model):
90% 95% 97.5% 99%
0.115 0.151 0.192 0.250
Dissimilarity ranks between and within classes:
0% 25% 50% 75% 100% N
Between 4 58.50 104.00 145.500 188.0 147
BF 5 15.25 25.50 41.250 57.0 3
HF 1 7.25 46.25 68.125 89.5 10
NM 6 64.75 124.50 156.250 181.0 15
SF 3 32.75 53.50 99.250 184.0 15
Greetings Kristof
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