fract_curve_clust: Decide the number of clusters by the fracture point of the...

In mrmtshmp/FractCurve: Find a point of fracture on curve.

Description

Decide the number of clusters by the fracture point of the height.

Usage

fract_curve_clust(df.features = OTUdata_all,
  df.phenotype = pData(obj.ADS), var.phenoGroup = "Disease",
  method.dist.row = "manhattan", method.dist.col = "manhattan",
  method.hclust.row = "ward", method.hclust.col = "ward",
  method.height = "substr.max", criteria = "max_I.Y",
  fisher_test = TRUE, dir.output = NULL, get.df_of_IYs,
  fn.plot_pdf = NULL, fn.df_of_IYs = NULL)

Arguments

df.features	A data.frame-class object.
df.phenotype	A data.frame-class object.
method.dist.row	A distance metric for clustering of features.
method.dist.col	A distance metric for clustering of samples.
method.hclust.row	An aggromerizing algorithm for clustering of features.
method.hclust.col	An aggromerizing algorithm for clustering of samples.
method.height	'substr.max' (default) or 'direct'.
criteria	Criteria on I.Y for the point to be identified.
dir.output	The directory to output results.
get.df_of_IYs	A logical if IYs will be obtained as data.frame in result.
fn.plot_pdf	The pdf file name for outputs.
fn.df_of_IYs	The csv file name for IY output.

mrmtshmp/FractCurve documentation built on Feb. 5, 2020, 1:13 p.m.