strep {clst} | R Documentation |
Square matrices decsribing pairwise distances among 16s rRNA sequences.
data(strep)
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 ...
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
.
data(strep)