fileImporter: fileImporter: Load Excel Data From Jones Group

In Khlick/jonesDataClass: Class Objects To Manage Calcium Imaging Data From Dr. Jones

Description

fileImporter: Load Excel Data From Jones Group

Usage

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.