getHaloExclusions: Remove points from data set that fall inside exclusion...

Description Usage Arguments Value

View source: R/exclusions.R

Description

Read Halo boundaries annotations file and remove from data set any cells that fall inside the exclusion regions

Usage

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getHaloExclusions(fov, dd, excType, haloAnnotations = NULL, aFile = NULL,
  exc = NULL, boundaryColors = NULL, boundaryReassignmentFile = NULL)

Arguments

aFile

Halo boundaries annotation file in XML format; if NULL, must provide the list of excluded region tables as returned by cleanBoundaries()

ds

tibble containing at minimum, Sample, SPOT, UUID, X, Y, Marker, Value

excB

a list of excluded region tables as returned by cleanBoundaries; if NULL, must provide the original Halo annotations file in XML format

Value

tibble filtered to remove points that fall inside exclusion boundaries


caitlinjones/halo documentation built on May 7, 2019, 8 a.m.