openCyto 1.3.17

Enhancements

more robust csv parsing
register wrapper function for quadGate.seq
parse 'subSample' argument from 'gating_args' column in csv template to allow subsampling the data prior to gating.
pass ... from quantileGate to quantile function
add method for multipleFitlerResult
support multi-dimensions in framework by deprecating x,y with channels.

Bug Fixes:

fix the bug that stop.at argument to gating doesn't recognize partial or full path

openCyto 1.7.1

Enhancements

New API: add_pop function allows users to apply a single gating method to GatingSet without writing the compelete csv template

openCyto 1.23.5

(Bioconductor version 3.10)

API Changes

Simple renaming

gate_flowClust_1d -> gate_flowclust_1d
gate_flowClust_2d -> gate_flowclust_2d
tautStringGate -> gate_tautstring
templateGen -> gh_generate_template
add_pop_init -> gs_add_gating_method_init
add_pop -> gs_add_gating_method
remove_pop -> gs_remove_gating_method
get.helperGates -> gs_get_helpergates
toggle.helperGates -> gt_toggle_helpergates
delete.helperGates -> gs_delete_helpergates
getNodes -> gt_get_nodes
getParent -> gt_get_parent
getChildren -> gt_get_children
getGate -> gt_get_gate
gating -> gt_gating
registerPlugins -> register_plugins

Classes and methods no longer exported

registerGatingFunction
gtMethod
gtPopulation
polyFunctions
ppMethod

Bug Fixes

Some minor fixes to gt_toggle_helpergates
Fix "positive" argument to gate_mindensity to match doc

openCyto 1.25.x

(Bioconductor version 3.11)

Enhancements

Allow control of mininum number of events for each step of GatingTemplate #298

Bug Fixes

Handle a few more edge cases in .improvedMinDensity
Added a fix to the density estimate used by gate_tautstring