mm_ArrayData: Array Data

In ehrlichd/moRphomenses: Geometric Morphometric Tools to Align, Scale, and Compare "Shape" of Menstrual Cycle Hormones

Array Data

Description

Construct a ragged array (containing missing data) of a specified length (up/down sampling individuals to fit).

Usage

mm_ArrayData(
  IDs,
  DAYS,
  VALUE,
  MID = NULL,
  targetLENGTH,
  targetMID = NULL,
  transformation = c("minmax", "geom", "zscore", "log", "log10"),
  impute_missing = 3
)

Arguments

IDs	A vector that contains individual IDs repeated for multiple days of collection.
DAYS	A vector that contains information on time, IE Day 1, Day 2, Day 3. Note: this vector should include integers, continuous data might produce unintended results.
VALUE	A vector containing the variable sampled.
MID	Am optional vector of midpoints to center each individuals profile. These should be unique to each individual and repeated for each observation of DAYS, VALUE, and IDs. If NULL (defualt), data will not be centered on any day.
targetLENGTH	Integer. Number of days to up/down sample observations to using mm_get_interval.
targetMID	If NULL (default) data will not be centered and will range from 0 to 1. If specified, data will be centered on 0 ranging from -1 to 1.
transformation	Which (if any) data transformation to apply. Our reccomendation is minmax, but Geometric mean, Zscore, natural log and log10 transformations are available, if desired.
impute_missing	Integer. If not null, number of nearest-neighbors to use to impute missing data (Default = 3).

Value

Returns a 3D array of data to be analyzed with individuals in the 3rd dimension.

ehrlichd/moRphomenses documentation built on Dec. 13, 2024, 8:36 a.m.