FilterTrackedCells: Filter an Aggregated Table of Cell Tracks

In ocbe-uio/cellmigRation: Track Cells, Analyze Cell Trajectories and Compute Migration Statistics

Description

Filter an Aggregated Table (data.frame) of cell tracks (from multiple images/experiments) and retain cell tracks from images/experiments of interest

Usage

FilterTrackedCells(x, id_list, meta_id_field)

Arguments

x	data.frame, is an aggregated Table of Cell Tracks. Must include the following columns: "new.ID", "frame.ID", "X", "Y", "cell.ID", "tiff_name", "experiment", "condition", "replicate"
id_list	character vector, indicates the IDs (such as tiff_filenames) to be retained in the output data.frame
meta_id_field	string, can take one of the following values, c("tiff_file", "experiment", "condition", "replicate"). Indicates the meta-data column used as unique ID for the image/experiment. Can be abbreviated. Defaults to "tiff_file".

Value

data.frame, a filtered aggregated Table of Cell Tracks

Author(s)

Damiano Fantini, [e-mail]

References

https://www.data-pulse.com/dev_site/cellmigration/

Examples

A <- data.frame(new.ID = seq(1,10,by=1), frame.ID = seq(10,1,by=(-1)),
                X = sample(seq(1,100,by=1), size = 10),
                Y = sample(seq(1,100,by=1), size = 10),
                cell.ID = c(rep(1, 5), rep(2, 5)),
                tiff_file= c(rep("ii", 3), rep("jj", 5), rep('kk', 2)))
FilterTrackedCells(A, id_list = c("jj", "kk"), "tiff_file")

ocbe-uio/cellmigRation documentation built on Dec. 16, 2021, 10:59 p.m.