actino {clst} | R Documentation

## Actinomyces data set

### Description

Square matrices decsribing pairwise distances among 16s rRNA sequences.

### Usage

    data(actino)

### Format

    List of 5
     $ dmat1 : num [1:146, 1:146] 0 0.763 1.25 10.345 12.771 ...
      ..- attr(*, "dimnames")=List of 2
      .. ..$ : chr [1:146] "200" "201" "202" "203" ...
      .. ..$ : chr [1:146] "200" "201" "202" "203" ...
     $ dmat2 : num [1:146, 1:146] 0 0.574 1.044 5.669 8.409 ...
      ..- attr(*, "dimnames")=List of 2
      .. ..$ : chr [1:146] "200" "201" "202" "203" ...
      .. ..$ : chr [1:146] "200" "201" "202" "203" ...
     $ dmat3 : num [1:146, 1:146] 0 0.763 1.25 8.571 11.233 ...
      ..- attr(*, "dimnames")=List of 2
      .. ..$ : chr [1:146] "200" "201" "202" "203" ...
      .. ..$ : chr [1:146] "200" "201" "202" "203" ...
     $ taxa  : Factor w/ 33 levels "Actinomyces bowdenii",..: 12 12 12 23 20 20 8 22 12 20 ...
     $ abbrev: Factor w/ 33 levels "A bowdenii","A canis",..: 12 12 12 23 20 20 8 22 12 20 ...

### Details

The matrices `$dmat1`, `dmat2`, and `dmat3` contain percent nucleotide difference with indels penalized heavily, little, and somewhat, respectively.

`$taxa` is a factor of species names; abbreviations of the same names are found in `$abbrev`.

### Examples

    data(actino)

[Package clst version 1.42.0 Index]