Problem with a substitution matrix...It is non square ;(

[Riku Perhoniemi]

Hello!

Trying to calculate distances in Sequence analysis using optimal matching.
Data IS in Wide format.

for that I need a substitution matrix. I've defined it as

matrix rix =(0,1,1,1,3,3 ///
1,0,1,1,3,3 ///
1,1,0,1,3,3 ///
1,1,1,0,3,3 ///
3,3,3,3,0,3 ///
3,3,3,3,3,0)
and there is no problem running the matrix itself (no error)

BUT when I try to move to

oma Element1-Element48, subsmat(rix) pwd(omd) length(48) indel(1.5)

THERE IS AN ERROR
Error: non square substitution matrix

Why?

I've followed Halpin (2017) http://teaching.sociology.ul.ie/bhal...main-local.pdf
pages 5-6, and I dont see any differences in logic




Can anyone help, I'd be SO grateful!

Riku Perhoniemi, Helsinki

[Christophe Kolodziejczyk]

Riku Perhoniemi The way you have written your matrix does that it is actually a row vector. Use \ for row-joining.

matrix rix =(0,1,1,1,3,3 \ ///
1,0,1,1,3,3 \ ///
1,1,0,1,3,3 \ ///
1,1,1,0,3,3 \ ///
3,3,3,3,0,3 \ ///
3,3,3,3,3,0)

[Riku Perhoniemi]

Got it, thanks a lot Christophe!!!!!!