taxtree_gen: Generate taxonomic tree

Description Usage Arguments Value See Also

View source: R/tools-txdct.R

Description

Generate a taxonomic tree for easy look up of taxonomic parents and descendants.

Usage

1
taxtree_gen(prinds, ids, root, ps)

Arguments

prinds

Vector of integers indicating preceding node.

ids

Vector of taxonomic IDs

root

ID of root taxon

ps

Parameters list, generated with parameters()

Value

TreeMan

TreeMan class

See Also

Other run-private: batcher, blast_clstr, blast_filter, blast_setup, blast_sqs, blastcache_load, blastcache_save, blastdb_gen, blastn_run, cache_rm, cache_setup, clade_select, clstr2_calc, clstr_all, clstr_direct, clstr_sqs, clstr_subtree, clstrarc_gen, clstrarc_join, clstrrec_gen, clstrs_calc, clstrs_join, clstrs_merge, clstrs_renumber, clstrs_save, cmdln, descendants_get, download_obj_check, error, hierarchic_download, info, ncbicache_load, ncbicache_save, obj_check, obj_load, obj_save, parameters_load, parameters_setup, parent_get, progress_init, progress_read, progress_reset, progress_save, rank_get, safely_connect, search_and_cache, searchterm_gen, seeds_blast, seq_download, seqarc_gen, seqrec_augment, seqrec_convert, seqrec_gen, seqrec_get, sids_check, sids_get, sids_load, sids_save, sqs_count, sqs_load, sqs_save, stage_args_check, stages_run, tax_download, taxdict_gen, txids_get, txnds_count, warn


phylotaR documentation built on July 31, 2018, 5:01 p.m.