R: Function to import data from the FlowCAM

import {zooimage}

R Documentation

Function to import data from the FlowCAM

Description

These functions read data and metadata from FlowCAM runs and import them into ZooImage objects.

Usage

readFlowCAMctx(ctx, stop.it = TRUE)
readFlowCAMlst(lst, skip = 2, read.ctx = TRUE)
importFlowCAM(lst, rgb.vigs = FALSE,  type = "ZI3", replace = FALSE)

Arguments

`ctx`	the path to a .ctx FlowCAM file.
`stop.it`	should the process stop in case of an error? Set this to `FALSE` when you run in batch mode and want the error to be repported back to the calling code.
`lst`	the path to a .lst FlowCAM file.
`skip`	the number of lines to skip in the .lst table before reading the data. This is usally two lines.
`read.ctx`	should we also read the .ctx file with `readFlowCAMctx()`?
`rgb.vigs`	do we build color vignettes that mix OD, visual and mask in the three RGB channels? By default, not (FALSE)
`type`	the type of `.zidb` file to create. Currently, only supports `type = "ZI3"` (defaulf value).
`replace`	a boolean indicating if an existing `.zidb` file should be replaced by a new one.

Details

The Visual Spreadsheet software provided with the FlowCAM is constantly changing specifications from version to version. This is mainly tested with VS 1.5.14 and 3.2.3.

Value

A zidb object with the converted data, metadata and images.

Author(s)

Philippe Grosjean <Philippe.Grosjean@umons.ac.be>

Examples

## TODO...

[Package zooimage version 5.5.2 Index]