Is txid in sequence?

Checks if given txid is represented by sequence by looking at sequence source organism's lineage.

Usage

is_txid_in_sq(phylota, txid, sid)

Arguments

phylota

Phylota

txid

Taxonomic ID

sid

Sequence ID

Value

boolean

See also

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

Examples

data(tinamous)
sid <- tinamous@sids[[1]]
sq <- tinamous[[sid]]
txid <- sq@txid
# expect true
is_txid_in_sq(phylota = tinamous, txid = txid, sid = sid)
#> [1] TRUE