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Matrices in OpenMx must be one of:

m11 | 0 | 0 |

0 | m22 | 0 |

0 | 0 | m33 |

Full

m11 | m21 | m31 |

m21 | m22 | m32 |

m31 | m32 | m33 |

1 | 0 | 0 |

0 | 1 | 0 |

0 | 0 | 1 |

**Lower**

m11 | 0 | 0 |

m21 | m22 | 0 |

m31 | m32 | m33 |

**Stand** (symmetric, ones on diagonal)

1 | m21 | m31 |

m21 | 1 | m32 |

m31 | m32 | 1 |

**Sdiag** (the sub-diagonal lower matrix)

0 | 0 | 0 |

m21 | 0 | 0 |

m31 | m32 | 0 |

m11 | m21 | m31 |

m21 | m22 | m32 |

m31 | m32 | m33 |

1 | 0 | 0 |

0 | 1 | 0 |

0 | 0 | 1 |

0 | 0 | 0 |

0 | 0 | 0 |

0 | 0 | 0 |

require(OpenMx) A <- <strong>mxMatrix</strong>('Full', 1, 1, values = 1, name = 'A') B <- <strong>mxMatrix</strong>('Full', 1, 1, values = 2, name = 'B') C <- <strong>mxMatrix</strong>('Full', 1, 1, values = 3, name = 'C') D <- <strong>mxMatrix</strong>('Full', 3, 1, labels = c('A[1,1]', 'B[1,1]', 'C[1,1]'), name = 'D') model <- <strong>mxModel</strong>('model', A, B, C, D) fit <- <strong>mxRun</strong>(model) mxEval(D, fit)

A <- <strong>mxMatrix</strong>('Full', 2, 2, values = c(1,2,3,4), byrow = TRUE, name = 'A') B <- <strong>mxAlgebra</strong>(A + A, name = 'B') C <- <strong>mxMatrix</strong>('Full', 2, 2, labels = c('B[2,2]', 'B[2,1]', 'B[1,2]', 'B[1,1]'), byrow = TRUE, name = 'C') model <- <strong>mxModel</strong>('model', A, B, C) fit <- <strong>mxRun</strong>(model) mxEval(C, fit)

myMatrix <- mxMatrix('Full', 3, 5) nrow(myMatrix) ncol(myMatrix)

This feature allows you to use labels in an MxMatrix to refer to other MxMatrices or to MxAlgebras. This is done by specifying the name, row, and col of the target matrix or algebra as you would expect to be able to in R, i.e., "foo[row,col]".

The effect of pointing to another cell using bracket notation is just the same as setting the label of the two cells to the same value.

So, given a matrix A with labels:

aLabels = c( "a1", "a2", "a3", "a4" )

Setting the labels of matrix B to this:

bLabels = c( "a1", "b2", "b3", "b4" )

Is the same as setting the labels of matrix B to this:

bLabels = c( "A[1,1]", "b2", "b3", "b4" )

Both methods forces cell B[1,1] to take the same value as A[1,1].

the benefit of the [] syntax is that you only need to set one label to equate two cells, and you don't need to know what label the other cell has currently, just its location.

You might see examples (for instance univariate examples) where labels are set with a one item, i.e

` mxMatrix('Full', 1, 1, labels = "A11", name = 'A')`

Bear in mind that if you scale this up to a multivariate case, e.g.:

` mxMatrix('Full', nrow=2, ncol=2, labels = "A11", name = 'A')`

All 4 cells of the new matrix will have the same label, and therefore their values will be forced to be equal. This is probably not what you wanted.

The solution is to provide labels for all the cells

` mxMatrix('Full', nrow=2, ncol=2, labels = c("A11","A21","A12","A22",) name = 'A')`

or for those more familiar with R:

alabels = paste("A", rep(1:n,each=n), 1:n, sep=""); mxMatrix('Full', nrow=n, ncol=n, labels = alabels, name = 'A') <em> A@labels [,1] [,2] [,3] [1,] "A11" "A21" "A31" [2,] "A12" "A22" "A32" [3,] "A13" "A23" "A33" </em>

omxGetParameters, omxAssignFirstParameters

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