linkFrames: Takes xy data with wells and links spots frame to frame.
In royfrancis/drtracker: Track zebrafish larvae in assay plates

Description Usage Arguments Details Value

Takes xy data with wells and links spots frame to frame.

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linkFrames(files = NULL, dframe = NULL, wells = 24,
  filenamediscard = "-AssignedWells.txt", exportdata = TRUE,
  exportplot = TRUE, follow = "none", quiet = FALSE)

`files`	A character or vector of paths or filenames. A text file exported from `assignWells()` is suitable. See details.
`dframe`	A dataframe output from `assignWells()`. See details.
`wells`	A numeric indicating plate format. Either 24 or 48.
`filenamediscard`	A character for part of the filename to be removed. '-AssignedWells.txt' is removed by default.
`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.
`follow`	A character indicating if the algorithm must be followed at every step. See details.
`quiet`	A logical indicating if messages should be printed to console during the run. If `FALSE`, all output to console is killed except progress bar.

Note that the 'xx-EdgeMarks.txt' file must be present in the working directory for the plot exports to work. Input
The input for this function can be a vector of filenames passed to argument files or a dataframe passed to argument dframe. Use any one and not both. 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 4 columns named plate, x, y and well. plate is a character denoting the filename. x is a numeric indicating x coordinate and y is a numeric indicating y coordinate of each spot. well indicates the well number to which each spot is assigned. Any extra columns are not used.
dframe
A dataframe containing a minimum of 4 columns named plate, x, y and well. plate is a character denoting the filename. x is a numeric indicating x coordinate and y is a numeric indicating y coordinate of each spot. well indicates the well number to which each spot is assigned. Any extra columns are not used.
follow
Set as 'none', 'interactive' or 'track'. In 'interactive' mode, a plot is shown at every frame and waits for user input. In 'track' mode, the track path creation is shown in real-time.

Returns a dataframe with original data (plate,x,y,well) along with a new columns id, linktype and frame. plate column is the filename without filenamediscard. The well column contains the well assignment. If number of input files > 1, then the dataframe RESULTS FOR THE LAST INPUT FILE is returned. If exportdata=TRUE, then a text file ending in '-Tracks' with dataframe is exported in the working directory for each input file. This '-Tracks' text file is used as input for several other functions.

royfrancis/drtracker documentation built on May 27, 2019, 11:45 p.m.