Setup tSNE config.

Setup tSNE config.

Usage

setup_tSNE(
  k = 2L,
  initial_dims = 50L,
  perplexity = 30,
  theta = 0.5,
  check_duplicates = TRUE,
  pca = TRUE,
  partial_pca = FALSE,
  max_iter = 1000L,
  verbose = getOption("verbose", FALSE),
  is_distance = FALSE,
  Y_init = NULL,
  pca_center = TRUE,
  pca_scale = FALSE,
  normalize = TRUE,
  stop_lying_iter = ifelse(is.null(Y_init), 250L, 0L),
  mom_switch_iter = ifelse(is.null(Y_init), 250L, 0L),
  momentum = 0.5,
  final_momentum = 0.8,
  eta = 200,
  exaggeration_factor = 12,
  num_threads = 1L
)

Arguments

k

Integer: Number of components.

initial_dims

Integer: Initial dimensions.

perplexity

Integer: Perplexity.

theta

Float: Theta.

check_duplicates

Logical: If TRUE, check for duplicates.

pca

Logical: If TRUE, perform PCA.

partial_pca

Logical: If TRUE, perform partial PCA.

max_iter

Integer: Maximum number of iterations.

verbose

Logical: If TRUE, print messages.

is_distance

Logical: If TRUE, x is a distance matrix.

Y_init

Matrix: Initial Y matrix.

pca_center

Logical: If TRUE, center PCA.

pca_scale

Logical: If TRUE, scale PCA.

normalize

Logical: If TRUE, normalize.

stop_lying_iter

Integer: Stop lying iterations.

mom_switch_iter

Integer: Momentum switch iterations.

momentum

Float: Momentum.

final_momentum

Float: Final momentum.

eta

Float: Eta.

exaggeration_factor

Float: Exaggeration factor.

num_threads

Integer: Number of threads.

Value

tSNEConfig object.

Details

Get more information on the config by running ?Rtsne::Rtsne.

Author

EDG

Examples

tSNE_config <- setup_tSNE(k = 3L)
tSNE_config
#> <tSNE DecompositionConfig>
#>                   k: <int> 3
#>        initial_dims: <int> 50
#>          perplexity: <nmr> 30.00
#>               theta: <nmr> 0.50
#>    check_duplicates: <lgc> TRUE
#>                 pca: <lgc> TRUE
#>         partial_pca: <lgc> FALSE
#>            max_iter: <int> 1000
#>             verbose: <lgc> FALSE
#>         is_distance: <lgc> FALSE
#>              Y_init: <NUL> NULL
#>          pca_center: <lgc> TRUE
#>           pca_scale: <lgc> FALSE
#>           normalize: <lgc> TRUE
#>     stop_lying_iter: <int> 250
#>     mom_switch_iter: <int> 250
#>            momentum: <nmr> 0.50
#>      final_momentum: <nmr> 0.80
#>                 eta: <nmr> 200.00
#> exaggeration_factor: <nmr> 12.00
#>         num_threads: <int> 1