mp_mrpp {MicrobiotaProcess} | R Documentation

## Analysis of Multi Response Permutation Procedure (MRPP) with MPSE or tbl_mpse object

### Description

Analysis of Multi Response Permutation Procedure (MRPP) with MPSE or tbl_mpse object

### Usage

    mp_mrpp(
      .data,
      .abundance,
      .group,
      distmethod = "bray",
      action = "add",
      permutations = 999,
      seed = 123,
      ...
    )

    ## S4 method for signature 'MPSE'
    mp_mrpp(
      .data,
      .abundance,
      .group,
      distmethod = "bray",
      action = "add",
      permutations = 999,
      seed = 123,
      ...
    )

    ## S4 method for signature 'tbl_mpse'
    mp_mrpp(
      .data,
      .abundance,
      .group,
      distmethod = "bray",
      action = "add",
      permutations = 999,
      seed = 123,
      ...
    )

    ## S4 method for signature 'grouped_df_mpse'
    mp_mrpp(
      .data,
      .abundance,
      .group,
      distmethod = "bray",
      action = "add",
      permutations = 999,
      seed = 123,
      ...
    )

### Arguments

`.data` | MPSE or tbl_mpse object
`.abundance` | the name of abundance to be calculated.
`.group` | The name of the column of the sample group information.
`distmethod` | character the method to calculate pairwise distances, default is 'bray'.
`action` | character "add" joins the ANOSIM result to internal attribute of the object, "only" return a tibble contained the statistic information of MRPP analysis, and "get" return 'mrpp' object can be analyzed using the related vegan funtion.
`permutations` | the number of permutations required, default is 999.
`seed` | a random seed to make the MRPP analysis reproducible, default is 123.
`...` | additional parameters see also 'mrpp' of vegan.

### Value

update object according action argument

### Author(s)

Shuangbin

### Examples

    data(mouse.time.mpse)
    mouse.time.mpse %>%
      mp_decostand(.abundance=Abundance) %>%
      mp_mrpp(.abundance=hellinger,
              .group=time,
              distmethod="bray",
              permutations=999, # for more robust, set it to 9999.
              action="get")

[Package MicrobiotaProcess version 1.4.4 Index]