Description Usage Arguments Details Value
Computes alphahull (concave hull) of xy spot data.
1 2 3 |
files |
A character or vector of paths or filenames. See details. |
wells |
A numeric indicating plate format. Either 24 or 48. |
filenamediscard |
A character for part of the filename to be removed. '-Tracks.txt' is removed by default. |
mm |
A numeric indicating number of pixels in 1 mm. |
alphavalue |
A numeric indicating alpha value for alphahull. See details. |
exportdata |
A logical indicating if data table must be exported as a text file to the working directory. |
exportplot |
A logical if results must be plotted as a figure and exported to working directory. |
quiet |
A logical indicating if messages should be printed to console during the run. If |
Note that the 'xx-EdgeMarks.txt' file must be present in the working directory for the plot exports to work.
files
A character or vector of paths to files. On windows, use choose.files()
for interactive selection.
The input files must be tab-delimited decimal as dot (.) text files. The file
must contain a minimum of 3 columns named x, y and well. x is a numeric
indicating x coordinate and y is a numeric indicating y coordinate of each spot. well indicates well for each spot.
Any extra columns are not used. Use output from linkFrames()
.
A text file with edge marks (filename-EdgeMarks.txt) must be present in the working directory for plotting.
The edge marks file is exported by function assignWells()
.
alphavalue
A default value of 4 is used. Smaller values produce more gaps in the spot cloud.
Returns a dataframe with columns: row, plate names, wells, alphahull (concave hull area) in pixel square and millimetre square.
If exportdata=TRUE
, the dataframe is export as a text file in the working directory for each input file.
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