flowPloidyData: Example flow cytometry datasets from analysis of ploidy in...
In plantarum/flowPloidyData: Example Flow Cytometry Data

A list of LMD files from analyses of the plant leaf tissue samples, co-chopped with standards with known GC (e.g., tomato, soybean etc.).

1	flowPloidyFiles

The variable flowPloidyFiles contains a vector of filenames corresponding to the LMD files provided by this package. Individual elements of this vector (e.g., flowPloidyFiles[1] can be passed to functions that load a single FCS file, such as flowCore::read.FCS. The entire vector can be passed to functions that load multiple files, such as flowPloidy::histBatch.

Each element is named with the filename (without the path), so that you can select an individual filename either by numeric index (i.e., flowPloidyFiles[7]) or by name (flowPloidyFiles["248+S.LMD"]). The names aren't meaningful to you, of course! I added them to provide a more robust way to select an individual file, as the order of files may change in package updates.

The individual files named in flowPloidyFiles are LMD files generated by a Beckman-Coulter Gallios flow cytometer. They represent a variety of samples, and some of them are low quality. They are not ideal data sets, but rather represent a range of data quality for assessing the performance of flowPloidy.

A named character vector of file names, including their full path in the local file system.

flowPloidyFiles   ## a character vector of file names

## Read in the first file:
library(flowCore)
fcs <- read.FCS(flowPloidyFiles[1], dataset = 1,
                          alter.names = TRUE)