These functions read data and metadata from FlowCAM runs and import them into ZooImage objects.
readFlowCAMctx(ctx, stop.it = TRUE)
readFlowCAMlst(lst, skip = 2, read.ctx = TRUE)
importFlowCAM(lst, rgb.vigs = FALSE, type = "ZI3", replace = FALSE)
the path to a .ctx FlowCAM file.
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.
the path to a .lst FlowCAM file.
the number of lines to skip in the .lst table before reading the data. This is usally two lines.
should we also read the .ctx file with readFlowCAMctx()
?
do we build color vignettes that mix OD, visual and mask in the three RGB channels? By default, not (FALSE)
the type of .zidb
file to create. Currently, only supports
type = "ZI3"
(defaulf value).
a boolean indicating if an existing .zidb
file should
be replaced by a new one.
A zidb
object with the converted data, metadata and images.
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.