_pkgdown.yml

template:
  params:
    bootswatch: cosmo

reference:
  - title: Authentication
    desc: Functions for authenticating with CellEngine.
    contents:
      - authenticate
      - setServer

  - title: Experiments
    contents:
      - createExperiment
      - deleteExperiment
      - getExperiment
      - getExperiments
      - updateExperiment

  - title: Attachments
    contents:
      - downloadAttachment
      - getAttachments
      - uploadAttachment

  - title: FCS Files
    contents:
      - annotateFcsFile
      - deleteFcsFile
      - downloadFcsFiles
      - getEvents
      - getFcsFile
      - getFcsFiles
      - getPlot
      - setFcsFilePanel
      - updateFcsFile
      - uploadFcsFile

  - title: Scales
    contents:
      - applyScale
      - applyScaleSet
      - getScaleSets

  - title: Compensations
    contents:
      - createCompensation
      - deleteCompensation
      - getCompensation
      - getCompensations
      - updateCompensation

  - title: Gates and Populations
    contents:
      - createEllipseGate
      - createGates
      - createPolygonGate
      - createPopulation
      - createQuadrantGate
      - createRangeGate
      - createRectangleGate
      - createSplitGate
      - deleteGates
      - deletePopulationAuto
      - getGate
      - getGates
      - getPopulation
      - getPopulations
      - updateGate
      - updateGateFamily
      - updatePopulation

  - title: Statistics
    contents:
      - getStatistics

  - title: FlowCore Utilities
    contents:
      - fromFlowCore
      - toFlowCore

  - title: Utilities
    contents:
      - byName
      - createLookup
      - FILE_INTERNAL
      - generateId
      - getErrorInfo
      - PER_FILE
      - UNCOMPENSATED
      - UNGATED

articles:
  - title: Getting Started
    contents:
      - gettingStarted
  - title: Gating
    contents:
      - workingWithGates
  - title: Using with Other Cytometry Packages
    contents:
      - flowCut
      - flowDensity
  - title: Analysis Tasks
    contents:
      - histogramSubtraction

navbar:
  structure:
    left: [home, reference, articles]