Shiny app for exploring clustering solutions

Opening the GUI to cluster the data points based on values in space2. Coordinates and distances are computed on the fly, or can be entered in the function call.

Usage

pandemonium(
  df,
  cov = NULL,
  is.inv = FALSE,
  exp = NULL,
  space2 = NULL,
  space2.cov = NULL,
  space2.exp = NULL,
  group = NULL,
  label = NULL,
  user_dist = NULL,
  dimReduction = list(tSNE = tSNE, umap = umap),
  getCoords = list(normal = normCoords),
  getScore = NULL
)

Arguments

df

data frame of data, assumes space 1 but variables can be re-assigned in the app

cov

covariance matrix (optional)

is.inv

is the covariance matrix an inverse default FALSE

exp

observable reference value (e.g. experimental measurement)

space2

data frame assumed to be in space 2 but variables can be re-assigned in the app

space2.cov

covariance matrix (optional)

space2.exp

observable reference value (e.g. experimental measurement)

group

grouping assignments

label

point labels

user_dist

input distance matrix (optional)

dimReduction

named list of functions used for dimension reduction

getCoords

named list containing functions to calculate coordinates

getScore

named list containing functions to calculate scores to be plotted as bins and continuous value.

Value

No return value, called to initiate 'shiny' app