define_gel_lanes: Define Gel Lanes

In avhgenomics/bioKIT: bioKIT: Common functions for routine molecular biology applications.

Description

This function uses the inflect function (bioKIT) to identify local minima in an agarose gel image. From this set of minima, the middle of each lane can be defined. This returns a range, expanded by a set of pixels on either side of the middle.

Usage

define_gel_lanes(gel_img, x_inflect_threshold = 25, expand_lanes = 10,
  plot_signal = T)

Arguments

gel_img	an image object, created using the imager package.
expand_lanes	how far in each direction from the midpoint should lanes be "expanded? 10 by default.
plot_signal	Display the locations of the ranges? Useful for ensuring accuracy.
inflect_threshold	px threshold for calculating minima; integer, 25 by default.

Value

Returns a dataframe of the calculated information. Can also return a plot.

Examples

# ADD_EXAMPLES_HERE

avhgenomics/bioKIT documentation built on May 5, 2019, 12:29 a.m.