Changelog

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