ClstrRec-class | R Documentation |
Cluster record contains all information on a cluster.
## S4 method for signature 'ClstrRec'
as.character(x)
## S4 method for signature 'ClstrRec'
show(object)
## S4 method for signature 'ClstrRec'
print(x)
## S4 method for signature 'ClstrRec'
str(object, max.level = 2L, ...)
## S4 method for signature 'ClstrRec'
summary(object)
x |
|
object |
|
max.level |
Maximum level of nesting for str() |
... |
Further arguments for str() |
id
Cluster ID, integer
sids
Sequence IDs
nsqs
Number of sequences
txids
Source txids for sequences
ntx
Number of taxa
typ
Cluster type: direct, subtree or merged
seed
Seed sequence ID
prnt
Parent taxonomic ID
Other run-public:
ClstrArc-class
,
Phylota-class
,
SeqArc-class
,
SeqRec-class
,
TaxDict-class
,
TaxRec-class
,
clusters2_run()
,
clusters_run()
,
parameters_reset()
,
reset()
,
restart()
,
run()
,
setup()
,
taxise_run()
data('aotus')
clstrrec <- aotus@clstrs@clstrs[[1]]
# this is a ClstrRec object
# it contains cluster information
show(clstrrec)
# you can access its different data slots with @
clstrrec@id # cluster id
clstrrec@sids # sequence IDs
clstrrec@nsqs # number of sequences
clstrrec@txids # taxonomic IDs of sequences
clstrrec@ntx # number unique taxonomic IDs
clstrrec@typ # cluster type: merged, subtree, direct or paraphyly
clstrrec@prnt # MRCA of all taxa
clstrrec@seed # most inter-connected sequence
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.