[R] extract values from summary of function indval of the package labdsv

Rui Barradas ruipbarradas at sapo.pt
Tue Jul 24 13:33:34 CEST 2012


There's a general purpose way to get the members of the object returned 
by summary functions. What you have tried unsuccessfully is a particular 
case of that method: assign summary to a variable and see what's int it.

si <- summary(indication3)
class(si)  # see the class of summary object
[1] "NULL"

Null? It returns nothing so the general purpose method doesn't work. 
More on this later.
Taking a look at the package source, file indval.R, function 
summary.indval shows how it is done:


So use 'indication3' instead of 'object and get rid of round() to have 
more decimals. The following should do it.


As for the value [not] returned by summary, it is recommended that it 
returns something and have the print out be handled by a 
print.summaryXXX method. In which case, after seeing of what class, we 
could have printed the members one by one, in a loop or something similar.

Hope this helps,

Rui Barradas

Em 23-07-2012 17:03, katse escreveu:
> Hi everybody,
> I am doing Indicator species analysis using the function "indval" from the
> package "labdsv".
> For further analysis I need the values "Number of Significant Indicators"
> and "Sum of Indicator Values" that is calculated from the summary on my
> indval object.
>   indication3<-indval(Veg,caver3,numitr=4999)
>   summary(indication3)
>   cluster indicator_value probability
> X14        1          0.9423  0.00020004
> X10        1          0.8993  0.00040008
> ...
> Sum of probabilities                 =  22.7643528705741
> Sum of Indicator Values              =  57.55
> Sum of Significant Indicator Values  =  17.03
> Number of Significant Indicators     =  22
> Significant Indicator Distribution
>   1  2  3
> 10 10  2
> I tried to extract them using "summary(indication3)$Sum of Indicator Values"
> for example, but it doesn't work. Is there a way to get the values?
> Someone has an idea?
> Thanks
> katse
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