fileImporter: fileImporter: Load Excel Data From Jones Group

Description Usage Arguments Value

View source: R/fileImporter.R

Description

fileImporter: Load Excel Data From Jones Group

Usage

1
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fileImporter(filePath, dataPath = NULL, verbose = FALSE,
  dataPathAppend = "", ...)

Arguments

filePath

character: full path to excel file (required)

dataPath

character: full path to data file for appending new data (optional)

verbose

bool: Report progress of file loading, default FALSE (recommended TRUE)

dataPathAppend

chracter: string to append onto the saved datafile, used only if dataPath is supplied

...

Arguments passed onto internal functions.

Value

List with the following Structure.

Background

List that contains, if applicable, the background lum (0-255), the ROI area and ROI coordinates.

ID

Which ROI ID was used for extraction of the background data.

Data

The Time series calcium lum (0-255) of the background roi.

ROI

Coordinates of the ROI in X, Y, X.Pixels and Y.Pixels.

Area

The Area in microns squared.

Areas

data.frame with cell id and area of ROI in microns squared.

ROIs

list of ROI coordinates (named) for each cellID

CellID

Named list of data.frame

X
Y
X.Pixels
Y.Pixels
Raw
File
Name
Properties

matrix of values from excel header.

Info
SamplingRate
TreatmentStart
nCells
HasBackground
Original

data.frame of CellID without Time, but includes bg if applicable.

Time
Data

df/f0

Corrected

df/f0 - background

Standardized

((data-median)/mad)-mean

Image
HasImage
File
Name
Type
Path
Data

rtiff::readTiff


Khlick/jonesDataClass documentation built on May 26, 2019, 4:37 p.m.