loadALIGNED: Build sample alignment and annotation template using already...

In lauzikaite/massflowR: LC-MS Data Pre-Processing

Description

Function handles the construction of massFlowTemplate class object from already aligned samples. Function enables user to continue an interrupted peak alignment process, facilitated by alignPEAKS function.

Usage

loadALIGNED(
  file = NULL,
  template = NULL,
  mz_err = 0.01,
  rt_err = 2,
  bins = 0.05,
  cutoff = 0,
  realtime = FALSE
)

Arguments

file	A character with path to the csv file, specifying samples filenames and their acquisition order.
template	A character with path to the csv file with the latest template obtained by alignPEAKS function.
mz_err	numeric specifying the window for peak matching in the MZ dimension. Default set to 0.01.
rt_err	numeric specifying the window for peak matching in the RT dimension. Default set to 2 (sec).
bins	numeric defying step size used in component's spectra binning and vector generation. Step size represents MZ dimension (default set to 0.05).
cutoff	numeric for spectra similarity score threshold, set to 0 by default.
realtime	logical whether real-time implementation is required. If set to TRUE, alignment will wait for intermediate peakgroups files to be written.

Details

Arguments are identical to the ones used by buildTMP constructor function.

Value

A massFlowTemplate class object.

See Also

massFlowTemplate class.

lauzikaite/massflowR documentation built on April 27, 2020, 5:32 p.m.