labelRowsParam {metabCombiner} | R Documentation

## List labelRows & reduceTable Defaults

### Description

List of default parameters for combinedTable row annotation and removal. See help(labelRows) or ?labelRows for more details. reduceTableParam loads parameters for the more automated `reduceTable` function

### Usage

    labelRowsParam(
      maxRankX = 3,
      maxRankY = 3,
      minScore = 0.5,
      delta = 0.1,
      method = "score",
      maxRTerr = 10,
      resolveConflicts = FALSE,
      rtOrder = TRUE,
      remove = FALSE,
      balanced = TRUE,
      brackets_ignore = c("(", "[", "{")
    )

    reduceTableParam(
      maxRankX = 2,
      maxRankY = 2,
      minScore = 0.5,
      maxRTerr = 10,
      delta = 0.1,
      rtOrder = TRUE,
      brackets_ignore = c("(", "[", "{")
    )

### Arguments

`maxRankX` | maximum rank allowable for X features
`maxRankY` | maximum rank allowable for Y features
`minScore` | minimum score threshold; default: 0.5
`delta` | score distance or mz/rt difference tolerances for subgrouping; default: 0.1
`method` | thresholding method for subgroup detection ("score" or "mzrt"); default: "score"
`maxRTerr` | maximum allowable difference between predicted RT (rtProj) & observed RT (rty); default: 10 minutes
`resolveConflicts` | logical. If TRUE, automatically resolves subgroups to 1-1 feature pair alignments
`rtOrder` | logical. If TRUE and resolveConflicts is TRUE, imposes retention order condition on paired alignments
`remove` | option to eliminate rows determined as removable; default: FALSE
`balanced` | option to reduce balanced groups; default: TRUE
`brackets_ignore` | bracket types for ignoring string comparisons

### Value

list of labelRows parameters

### See Also

`labelRows`, `metabCombine`, `batchCombine`, `reduceTable`

### Examples

    lrParams <- labelRowsParam(maxRankX = 2, maxRankY = 2, delta = 0.1,
                                 maxRTerr = 0.5)

[Package metabCombiner version 1.4.0 Index]