[R] How to speed up multiple for loop over list of data frames

[Bartjoosen]

Maybe I'm wrong, but aren't you calculating just the same as cor(data
frame,method ="spearman"), with some further parameters being monitored?

Could you please provide a  commented, minimal, self-contained, reproducible
code, so that we can see what is actually going on and what is the way you
want it?


 

Dieter Best wrote:
> 
> Hi there, 
>    
>   I have a multiple for loop over a list of data frames
>    
>   for ( i in 1:(N-1) ) { 
>     for ( j in (i+1):N ) { 
>         for ( p in 1:M ) { 
>             v_i[p]    = alist[[p]][i,"v"]
>             v_j[p]    = alist[[p]][j,"v"]
>         }          
>         rho_s = cor(v_i, v_j, method = "spearman")
>         rho_p = cor(v_i, v_j, method = "pearson" )
>         iv     = c( iv, min(i, j) )
>         jv     = c( jv, max(i, j) ) 
>         rho_sv = c( rho_sv, rho_s)
>         rho_pv = c( rho_pv, rho_p)
>     }
> }
>    
>   N is of the order of 400, M about 800.
>    
>   This takes me an entire day basically. Is there anything I could do to
> speed things up or is cor really that slow?
>    
>   -- D
> 
> 
>        
> ---------------------------------
> 
> 
> 	[[alternative HTML version deleted]]
> 
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> and provide commented, minimal, self-contained, reproducible code.
> 
> 

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