ds.subsetExpressionSet: Subset ExpressionSet

In isglobal-brge/dsOmicsClient: DataSHIELD client site Omics association functions.

Subset ExpressionSet

Description

Subset ExpressionSet using a categorical variable of the covariates as filter. Can also subset by complete cases

Usage

ds.subsetExpressionSet(
  eSet,
  objective_variable = NULL,
  objective_value = NULL,
  complete_cases = FALSE,
  newobj.name = NULL,
  datasources = NULL
)

Arguments

eSet	character ExpressionSet to subset
objective_variable	character (default NULL) Name of the covariate on the ExpressionSet to use as filter
objective_value	character (default NULL) Name of the value from the objective_variable to filter. The resulting subset will be the individuals that match this value. To put in in code, it can be represented as: subset <- expressionSet[expressionSet$objective_variable == objective_value,]
complete_cases	bool (default FALSE) If TRUE only the complete cases will be included on the subset. This option can be used with objective_variable and objective_value or without them, if those arguments are not present, the subset will be the complete cases of the whole ExpressionSet.
newobj.name	character (default NULL) Name of the subseted ExpressionSet. If NULL, the variable "subsetted_ExpressionSet" will be used.
datasources	a list of DSConnection-class (default NULL) objects obtained after login

Value

This function does not have an output. It creates (or overwrites) a data frame on the study server.

isglobal-brge/dsOmicsClient documentation built on March 20, 2023, 3:52 p.m.