wrTopDownFrag (version 1.0.4)

.checkModTy: Check Modification Type

Description

Check Modification Type

Usage

.checkModTy(
  modTy,
  knownMods,
  phoDePho = c("p", "q"),
  modTyGr = c("basMod", "varMod"),
  silent = FALSE,
  debug = FALSE,
  callFrom = NULL
)

Value

This function returns the corrected list of mixed of variable and fixed modifications ($basMod, $varMod and $varMo2)

Arguments

modTy

(character) list of modification types to be considered

knownMods

(character) optonal custom list of known modifications, default from AAfragSettings(outTy="all")$knownMods

phoDePho

(character) names of modifications that may be de-phosphorylated

modTyGr

(character) groups of modifications to consider (defaults used both 'basMod' and 'varMod')

silent

(logical) suppress messages

debug

(logical) additional messages for debugging

callFrom

(character) allows easier tracking of messages produced

See Also

AAfragSettings

Examples

modTy1 <- list(basMod=c("b","y","h"),varMod=c("p","o","q"))
.checkModTy(modTy1, knownMods=c("a","b","h","o","p","q","y"))