drop_clstrs: Drop cluster records from phylota object

In phylotaR: Automated Phylogenetic Sequence Cluster Identification from 'GenBank'

Description

Drops all clusters except those identified by user.

Usage

drop_clstrs(phylota, cid)

Arguments

phylota	Phylota object
cid	Cluster ID(s) to be kept

Value

phylota

See Also

Other tools-public: calc_mad, calc_wrdfrq, drop_by_rank, drop_sqs, get_clstr_slot, get_nsqs, get_ntaxa, get_sq_slot, get_stage_times, get_tx_slot, get_txids, is_txid_in_clstr, is_txid_in_sq, list_clstrrec_slots, list_ncbi_ranks, list_seqrec_slots, list_taxrec_slots, plot_phylota_pa, plot_phylota_treemap, read_phylota, write_sqs

Examples

data("dragonflies")
# specify cids to *keep*
random_cids <- sample(dragonflies@cids, 100)
# drop an entire cluster
nbefore <- length(dragonflies@cids)
dragonflies <- drop_clstrs(phylota = dragonflies, cid = random_cids)
nafter <- length(dragonflies@cids)
# now there are only 100 clusters
(nafter < nbefore)

phylotaR documentation built on May 1, 2019, 9:26 p.m.