strep {clst} | R Documentation

## Streptococcus data set.

### Description

Square matrices decsribing pairwise distances among 16s rRNA sequences.

### Usage

    data(strep)

### Format

    List of 5
     $ dmat1 : num [1:150, 1:150] 0 5.81 8.38 10.28 10.64 ...
      ..- attr(*, "dimnames")=List of 2
      .. ..$ : chr [1:150] "197" "199" "207" "208" ...
      .. ..$ : chr [1:150] "197" "199" "207" "208" ...
     $ dmat2 : num [1:150, 1:150] 0 5.09 3.82 7.21 7.59 ...
      ..- attr(*, "dimnames")=List of 2
      .. ..$ : chr [1:150] "197" "199" "207" "208" ...
      .. ..$ : chr [1:150] "197" "199" "207" "208" ...
     $ dmat3 : num [1:150, 1:150] 0 5.63 5.81 8.77 9.14 ...
      ..- attr(*, "dimnames")=List of 2
      .. ..$ : chr [1:150] "197" "199" "207" "208" ...
      .. ..$ : chr [1:150] "197" "199" "207" "208" ...
     $ taxa  : Factor w/ 50 levels "Streptococcus acidominimus",..: 31 44 26 4 4 31 32 39 42 31 ...
     $ abbrev: Factor w/ 50 levels "S acidominimus",..: 31 44 26 4 4 31 32 39 42 31 ...

### 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(strep)

[Package clst version 1.40.0 Index]