metavizControl: metavizr settings

In metavizr: R Interface to the metaviz web app for interactive metagenomics data analysis and visualization

Description

Default settings for the various plotting functions in metavizr.

Usage

metavizControl(aggregateAtDepth = 3, aggregateFun = function(x)
  colSums(x), valuesAnnotationFuns = NULL, maxDepth = 4,
  maxHistory = 3, maxValue = NULL, minValue = NULL, title = "",
  n = 10000, rankFun = stats::sd, norm = TRUE, log = FALSE,
  featureSelection = NULL)

Arguments

aggregateAtDepth	Level of the tree to aggregate counts at by default.
aggregateFun	Function to aggregate counts by at the aggregateAtDepth level.
valuesAnnotationFuns	Function for error bars.
maxDepth	Level of the tree to display by default in icicle view.
maxHistory	Value for caching.
maxValue	Maximum value to display.
minValue	Minimum value to display.
title	title.
n	Number of OTUs to include in ranking.
rankFun	Ranking function - single vector function.
norm	Normalize MRexperiment object.
log	Log tranformation of MRexperiment object.
featureSelection	List of features to set as nodeSelections

Value

List of setting parameters.

Examples

settings = metavizControl()

metavizr documentation built on Nov. 8, 2020, 5:13 p.m.