schnappsLite: shiny server relevant functions

In C3BI-pasteur-fr/UTechSCB-SCHNAPPs: Single Cell Shiny Application for Analysing Single Cell Transcriptomics Data

shiny server relevant functions

Description

shiny server relevant functions

Usage

schnappsLite(
  data = "RdataFile",
  localContributionDir = "~/Rstudio/shHubgit/Dummy/",
  defaultValueSingleGene = "CD52",
  defaultValueMultiGenes = "CD52, S100A4, S100A9, S100A8",
  defaultValueRegExGene = "",
  DEBUG = FALSE,
  DEBUGSAVE = FALSE,
  historyPath = NULL,
  maxCells = 3000,
  defaultValues = list(),
  AllowClustering = FALSE
)

Arguments

data	RdataFile data file with scEx, scEx_log, projections
localContributionDir	path to the directory(ies) that contain additional functionality
defaultValueSingleGene	single gene name to used as a default value.
defaultValueMultiGenes	comma separated list of gene names to be used as a default value.
defaultValueRegExGene	regular Expression used for gene selection
DEBUG	TRUE/FALSE whether to show debugging information on the console
DEBUGSAVE	TRUE/FALSE where or not save internal data (very time consuming)
historyPath	location (directory) where history directories and data will be stored.
maxCells	maximal number of cells to use. Used to limit memory usage for server
defaultValues	list of default values to use for inputs
AllowClustering	whether to include functionality to cluster cells.

Details

Shiny app for the analysis of single cell data

Examples

packPath = "schnappsPackage"
# TODO fix:
# schnappsLite(data = paste0(packPath, "/data/scExLite.RData"))

C3BI-pasteur-fr/UTechSCB-SCHNAPPs documentation built on Sept. 8, 2024, 12:44 a.m.