[R] transform large matrix into list

Huntsinger, Reid
Tue, 07 Jun 2005 16:23:10 -0000

This is almost the "triplet representation" of sparse matrices, except
the
triplet representation excludes zero entries. If you have a lot of zeros, it
would be worth a look at SparseM and Matrix.

Reid Huntsinger

-----Original Message-----
From: r-help-bounces at stat.math.ethz.ch
[mailto:r-help-bounces at stat.math.ethz.ch] On Behalf Of Liaw, Andy
Sent: Tuesday, June 07, 2005 9:42 AM
To: 'Stefan Mischke'; r-help at stat.math.ethz.ch
Subject: RE: [R] transform large matrix into list


Here's one way to do it:

> M
   x1 x2
y1  1  2
y2  4  5
y3  7  8
> (L <- cbind(v=c(M), x=c(col(M)), y=c(row(M))))
     v x y
[1,] 1 1 1
[2,] 4 1 2
[3,] 7 1 3
[4,] 2 2 1
[5,] 5 2 2
[6,] 8 2 3

(The seemingly extraneous c()'s are to drop the dimensions of those
matrices.)

Are you sure your L[3, 3] is correct?

Also, for a 10K^2 M, L is going to take up over 1.1GB of memory!  You may
want to look at SparseM and Matrix packages, which have facilities for
handling sparse matrices.

Andy

> From: Stefan Mischke
>
> Dear List
>
> I need to transform a large matrix M with many NAs into a list L with
> one row for each non missing cell. Every row should contain the cell
> value in the first column, and its coordinates of the matrix
> in column
> 2 and 3.
>
> M:
> 	x1	x2
> y1	1	2
> y2	4	5
> y3	7	8
>
> L:
> v	x	y
> 1	1	1
> 4	1	2
> 7	1	2
> 2	2	1
> 5	2	2
> 8	2	3
>
> I'm trying to do this with a loop, but since my matrix is quite large
> (around 10k^2) this just takes a very long time.
> There must be a more efficient and elegant way to do this. Any hints?
>
> Thanks,
> Stefan
>
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