normalise_swc: Normalise an SWC format block of neuron morphology data

In nat: NeuroAnatomy Toolbox for Analysis of 3D Image Data

Normalise an SWC format block of neuron morphology data

Description

Normalise an SWC format block of neuron morphology data

Usage

normalise_swc(
  x,
  requiredColumns = c("PointNo", "Label", "X", "Y", "Z", "W", "Parent"),
  ifMissing = c("usedefaults", "warning", "stop"),
  includeExtraCols = TRUE,
  defaultValue = list(PointNo = seq.int(nrow(x)), Label = 2L, X = NA_real_, Y = NA_real_,
    Z = NA_real_, W = NA_real_, Parent = NA_integer_)
)

Arguments

x	A data.frame containing neuron morphology data
requiredColumns	Character vector naming columns we should have
ifMissing	What to do if x is missing a required column
includeExtraCols	Whether to include any extra columns include in codex
defaultValue	A list containing default values to use for any missing columns

Details

Note that row.names of the resultant data.frame will be set to NULL so that they have completely standard values.

Value

A data.frame containing the normalised block of SWC data with standard columns in standard order.

See Also

as.neuron.data.frame, seglist2swc

nat documentation built on Aug. 25, 2023, 5:16 p.m.