mp_cal_NRI_NTI {MicrobiotaProcess} | R Documentation

## Calculating NRI (Nearest Relative Index) and NTI (Nearest Taxon Index) with MPSE or tbl_mpse object

### Description

Calculating NRI (Nearest Relative Index) and NTI (Nearest Taxon Index) with MPSE or tbl_mpse object

### Usage

    mp_cal_NRI_NTI(
      .data,
      .abundance,
      action = "add",
      abundance.weighted = TRUE,
      force = FALSE,
      seed = 123,
      ...
    )

    ## S4 method for signature 'MPSE'
    mp_cal_NRI_NTI(
      .data,
      .abundance,
      action = "add",
      abundance.weighted = TRUE,
      force = FALSE,
      seed = 123,
      ...
    )

    ## S4 method for signature 'tbl_mpse'
    mp_cal_NRI_NTI(
      .data,
      .abundance,
      action = "add",
      abundance.weighted = TRUE,
      force = FALSE,
      seed = 123,
      ...
    )

    ## S4 method for signature 'grouped_df_mpse'
    mp_cal_NRI_NTI(
      .data,
      .abundance,
      action = "add",
      abundance.weighted = TRUE,
      force = FALSE,
      seed = 123,
      ...
    )

### Arguments

`.data` | object, MPSE or tbl_mpse object
`.abundance` | The column name of OTU abundance column to be calculate.
`action` | character it has three options, "add" joins the new information to the input tbl (default), "only" return a non-redundant tibble with the just new information, ang 'get' return a 'alphasample' object.
`abundance.weighted` | logical, whether calculate mean nearest taxon distances for each species weighted by species abundance, default is TRUE.
`force` | logical whether calculate the alpha index even the '.abundance' is not rarefied, default is FALSE.
`seed` | integer a random seed to make the result reproducible, default is 123.
`...` | additional arguments see also "ses.mpd" and "ses.mntd" of "picante".

### Value

update object.

### Author(s)

Shuangbin Xu

[Package MicrobiotaProcess version 1.4.4 Index]