Action: ARRANGE_POINTS
| Module | dimred |
|---|---|
| Description | Usage |
| Arrange points in a low dimensional space so that the (transformed) distances between points in the low dimensional space match the dissimilarities provided in an input matrix. |   |
Input
The arguments that serve as the input for this action are specified using one or more of the keywords in the following table.
| Keyword | Type | Description |
|---|---|---|
| ARG | vector | the initial positions for the projections |
| TARGET | matrix | the matrix of target quantities that you would like to match |
| WEIGHTS | matrix | the matrix with the weights of the target quantities |
Further details and examples
Text from manual goes here
Syntax
The following table describes the keywords and options that can be used with this action
| Keyword | Type | Default | Description |
|---|---|---|---|
| ARG | input | none | the initial positions for the projections |
| TARGET | input | none | the matrix of target quantities that you would like to match |
| WEIGHTS | input | none | the matrix with the weights of the target quantities |
| MINTYPE | compulsory | conjgrad | the method to use for the minimisation |
| MAXITER | compulsory | 1000 | maximum number of optimization cycles for optimisation algorithms |
| CGTOL | compulsory | 1E-6 | the tolerance for the conjugate gradient minimization |
| NCYCLES | compulsory | 5 | the number of cycles of global optimization to attempt |
| BUFFER | compulsory | 1.1 | grid extent for search is (max projection - minimum projection) multiplied by this value |
| CGRID_SIZE | compulsory | 10 | number of points to use in each grid direction |
| FGRID_SIZE | compulsory | 0 | interpolate the grid onto this number of points – only works in 2D |
| SMACTOL | compulsory | 1E-4 | the tolerance for the smacof algorithm |
| SMACREG | compulsory | 0.001 | this is used to ensure that we don’t divide by zero when updating weights for SMACOF algorithm |
| NUMERICAL_DERIVATIVES | optional | false | calculate the derivatives for these quantities numerically |
| FUNC | optional | not used | a function that is applied on the distances between the points in the low dimensional space |