_pkgdown.yaml

title: RHermes
url: https://rogerginber.github.io/RHermes
template:
  params:
    bootswatch: flatly
reference:
  - title: Processing functions
    desc: Needed in the RHermes workflow
    contents:
      - '`setExpParam`'
      - '`setDB`'
      - '`processMS1`'
      - '`findSOI`'
      - '`filterSOI`'
      - '`removeISF`'
      - '`generateIL`'
      - '`filterIL`'
      - '`processMS2`'
  - title: Getters
    desc: Access to the RHermesExp subobjects
    contents:
      - '`adlist`'
      - '`Cluster`'
      - '`DB`'
      - '`PL`'
      - '`SOI`'
      - '`IL`'
      - '`MS2Data`'
      - '`Ident`'
  - title: Exporting functions
    desc: Export your IL and MS2 spectras
    contents:
      - '`exportIL`'
      - '`exportMGF`'
      - '`exportMSP`'
      - '`exportmzML`'
      - '`exportSIRIUS`'
  - title: Plotting functions
    desc: Bring your data alive
    contents:
      - '`plotPL`'
      - '`plotSOI`'
      - '`plotFidelity`'
      - '`plotISF`'
      - '`plotIL`'
      - '`plotSS`'
      - '`plotRawMS2`'
  - title: Accessory functions
    desc: Getting the job done
    contents:
      - '`addAd`'
      - '`remAd`'
      - '`getSOIPar`'
      - '`readTime`'
      - '`setTime`'
      - '`SOIsim`'
      - '`ssNetwork`'
      - '`setCluster`'
navbar:
  type: default