exportMetaboAnalyst {xcms} | R Documentation

## Export data for use in MetaboAnalyst

### Description

Export the feature table for further analysis in the MetaboAnalyst software (or the `MetaboAnalystR` R package).

### Usage

    exportMetaboAnalyst(
      x,
      file = NULL,
      label,
      value = "into",
      digits = NULL,
      groupnames = FALSE,
      ...
    )

### Arguments

`x` | XCMSnExp object with identified chromatographic peaks grouped across samples.
`file` | `character(1)` defining the file name. If not specified, the `matrix` with the content is returned.
`label` | either `character(1)` specifying the phenodata column in `x` defining the sample grouping or a vector with the same length than samples in `x` defining the group assignment of the samples.
`value` | `character(1)` specifying the value to be returned for each feature. See `featureValues()` for more details.
`digits` | `integer(1)` defining the number of significant digits to be used for numeric. The default `NULL` uses `getOption("digits")`. See `format()` for more information.
`groupnames` | `logical(1)` whether row names of the resulting matrix should be the feature IDs (`groupnames = FALSE`; default) or IDs that are composed of the m/z and retention time of the features (in the format `M<m/z>T<rt>` (`groupnames = TRUE`). See help of the groupnames function for details.
`...` | additional parameters to be passed to the `featureValues()` function.

### Value

If `file` is not specified, the function returns the `matrix` in the format supported by MetaboAnalyst.

### Author(s)

Johannes Rainer

[Package xcms version 3.16.1 Index]