failurecase: failurecase

In CONFESS: Cell OrderiNg by FluorEScence Signal

Description

Another helper to re-estimate the spot location or find the capture site location (BF image modelling).

Usage

failurecase(img, pattern.search, despeckle, ImgLimits, chip.type,
  separator, image.type)

Arguments

pattern.search	Integer. A cutoff to find horizontal and vertical lines on the chip.
despeckle	Logical. If TRUE, the BF image is descpeckled.
ImgLimits	Integer. It instructs the algorithm to find spots in a certain central image area. For example, for a 512 x 512 image with ImgLimits = 50, it will search for spots in the central area [ImgLimits:(512-ImgLimits),ImgLimits:(512-ImgLimits)] of the image matrix.
separator	Character string. Removes the Bright Field ("BF") and channel indicators from the image file names.
image.type	Character string. A triplet of IDs to characterize the type of images under study.
origImg	Data matrix. The original BF image to be read and processed.
type	Character string. It specifies the type of Fluidigm chip to be analyzed.

Value

Location statistics and characteristic lines of BF image modelling

CONFESS documentation built on Nov. 8, 2020, 6:05 p.m.