failurecase {CONFESS} | R Documentation

## failurecase

### 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

[Package CONFESS version 1.10.1 Index]