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\link{} targets missing package within
‘gateR-package.Rd’pval_correct() functionplot_cols correctly renamed cols
in lrr_plot() functionraster in Imports with terra
because of imminent package retirementif() conditions comparing class()
to string with inherits() in functionstools is no longer Importsutils is now Suggests because “zzz.R” calls the
packageDescription() functionncdfFlow, flowWorkspaceData are no longer
Suggests (for generating random data set randCyto) because
“Package suggested but not available for checking” in the some CRAN
environmentsspatstat.core and
spatstat.linnet packages based on feedback from the
Spatstat Team (Adrian Baddeley and Ege Rubak). All random generators in
spatstat.core were moved to a new package
spatstat.randomspatstat.geom, spatstat.core,
spatstat.linnet, and spatstat (>=2.0-0) are
no longer Dependsspatstat.geom is now Importsdplyr, ncdfFlow,
flowWorkspaceData, and usethis now Suggests
(for generating random data set randCyto)rlang is in Depends.gating() now includes a diagnostic message
saved as a character string for reference in a slot called
noterlang::last_error()$out$note after the unsuccessful run of
gating()@importFrom fields image.plot in
‘package.R’spatstat package to new subsetted packages
based on feedback from the Spatstat Team (Adrian Baddeley and Ege
Rubak). Now spatstat.geom, spatstat.core,
spatstat.linnet, and spatstat (>= 2.0-0)
are in Dependsvars in dat within the
gating() functionspatstat package to new subsetted packages
based on feedback from the Spatstat Team (Adrian Baddeley and Ege
Rubak). spatstat.geom package replaces
spatstat package in Importsbandw to be added to gating(),
lotrrs(), and rrs() functions to allow users
to specify bandwidth for the kernel density estimationpval_correct() function from the correlog()
function in the pgrimess package to the
modified.ttest() function in the SpatialPack
packagelifecycle package to document deprecated
arguments doplot and verbose in
lotrrs(), rrs(), and gating()
functionsgating() function, creates a categorized
im based on critical p-value, assigns that value to every
point in a ppp object, and subsets points by categorymaptools and sp packages from
Importssave_gate, name_gate, and
path_gate in lotrrs(), rrs(), and
gating() to save plots as PNG files as outputdoplot argument as plot_gate for
consistency with new plotting argumentsverbose argument in gating(),
rrs(), and lotrrs()try() error catches in rrs() and
lotrrs() for c1n and c2n
argumentsright argument in cut() in
pval_plot() to “TRUE” (the default for cut)make.names() check for vars and
colnames(dat) in gating()lotrrs(), rrs(),
and gating() about the levels of condition(s)lotrrs() that was mislabeling numerator
and denominator levels of second conditionc1n and c2n in
lotrrs(), rrs(), and gating() to
specify the numerator levelncdFlow, flowWorkspaceData, and
knitr packages from SuggestsrandCyto and all
documentationrandCyto dataThese binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.