wildtype_mutant_pnpp: Plate type: wildtype/mutant PNPP

In ddpcr: Analysis and Visualization of Droplet Digital PCR in R and on the Web

Plate type: wildtype/mutant PNPP

Description

A plate of type wildtype_mutant_pnpp is a subtype of pnpp_experiment that assumes the double-positive cluster denotes wildtype and the other non-empty cluster denotes mutant droplets. There are two plate types that are subtypes of wildtype_mutant_pnpp: fam_positive_pnpp and hex_positive_pnpp. It is not recommended to use this type directly; instead you should use one of the subtypes.

Details

Plates with this type have the following analysis steps: INITIALIZE, REMOVE_FAILURES, REMOVE_OUTLIERS, REMOVE_EMPTY, CLASSIFY, RECLASSIFY.

Plates with this type have the following droplet clusters: UNDEFINED, FAILED, OUTLIER, EMPTY (double-negative), RAIN (not empty but not wildtype nor negative), POSITIVE (wildtype), NEGATIVE (mutant).

See the README for more information on plate types.

See Also

plate_types
fam_positive_pnpp
hex_positive_pnpp
pnpp_experiment
analyze
remove_failures
remove_outliers
remove_empty
classify_droplets
reclassify_droplets

Examples

## Not run: 
plate <- new_plate(sample_data_dir(), type = plate_types$wildtype_mutant_pnpp)
type(plate)

## End(Not run)

ddpcr documentation built on Aug. 21, 2023, 1:07 a.m.