API for phylotaR
Automated Phylogenetic Sequence Cluster Identification from 'GenBank'
| Global functions | |
|---|---|
| ClstrArc-class | Man page |
| ClstrArc-method | Man page |
| ClstrRec-class | Man page |
| ClstrRec-method | Man page |
| Phylota-class | Man page |
| Phylota-method | Man page |
| SeqArc-class | Man page |
| SeqArc-method | Man page |
| SeqRec-class | Man page |
| SeqRec-method | Man page |
| TaxDict-class | Man page |
| TaxDict-method | Man page |
| TaxRec-class | Man page |
| TaxRec-method | Man page |
| [,ClstrArc,character,missing,missing-method | Man page |
| [,SeqArc,character,missing,missing-method | Man page |
| [[,ClstrArc,character-method | Man page |
| [[,Phylota,character-method | Man page |
| [[,SeqArc,character-method | Man page |
| aotus | Man page |
| as.character,ClstrArc-method | Man page |
| as.character,ClstrRec-method | Man page |
| as.character,Phylota-method | Man page |
| as.character,SeqArc-method | Man page |
| as.character,SeqRec-method | Man page |
| as.character,TaxDict-method | Man page |
| as.character,TaxRec-method | Man page |
| batcher | Man page |
| blast_clstr | Man page |
| blast_filter | Man page |
| blast_setup | Man page |
| blast_sqs | Man page |
| blastcache_load | Man page |
| blastcache_save | Man page |
| blastdb_gen | Man page |
| blastn_run | Man page |
| bromeliads | Man page |
| cache_rm | Man page |
| cache_setup | Man page |
| calc_mad | Man page |
| calc_wrdfrq | Man page |
| clade_select | Man page |
| clstr2_calc | Man page |
| clstr_all | Man page |
| clstr_direct | Man page |
| clstr_sqs | Man page |
| clstr_subtree | Man page |
| clstrarc_gen | Man page |
| clstrarc_join | Man page |
| clstrrec_gen | Man page |
| clstrs_calc | Man page |
| clstrs_join | Man page |
| clstrs_merge | Man page |
| clstrs_renumber | Man page |
| clstrs_save | Man page |
| clusters2_run | Man page |
| clusters_run | Man page |
| cmdln | Man page |
| cycads | Man page |
| descendants_get | Man page |
| download_obj_check | Man page |
| download_run | Man page |
| dragonflies | Man page |
| drop_by_rank | Man page |
| drop_clstrs | Man page |
| drop_sqs | Man page |
| error | Man page |
| get_clstr_slot | Man page |
| get_nsqs | Man page |
| get_ntaxa | Man page |
| get_sq_slot | Man page |
| get_stage_times | Man page |
| get_tx_slot | Man page |
| get_txids | Man page |
| hierarchic_download | Man page |
| info | Man page |
| is_txid_in_clstr | Man page |
| is_txid_in_sq | Man page |
| list_clstrrec_slots | Man page |
| list_ncbi_ranks | Man page |
| list_seqrec_slots | Man page |
| list_taxrec_slots | Man page |
| mk_txid_in_sq_mtrx | Man page |
| ncbicache_load | Man page |
| ncbicache_save | Man page |
| obj_check | Man page |
| obj_load | Man page |
| obj_save | Man page |
| parameters | Man page |
| parameters_load | Man page |
| parameters_reset | Man page |
| parameters_setup | Man page |
| parent_get | Man page |
| plot_phylota_pa | Man page |
| plot_phylota_treemap | Man page |
| print,ClstrArc-method | Man page |
| print,ClstrRec-method | Man page |
| print,Phylota-method | Man page |
| print,SeqArc-method | Man page |
| print,SeqRec-method | Man page |
| print,TaxDict-method | Man page |
| print,TaxRec-method | Man page |
| progress_init | Man page |
| progress_read | Man page |
| progress_reset | Man page |
| progress_save | Man page |
| rank_get | Man page |
| read_phylota | Man page |
| reset | Man page |
| restart | Man page |
| run | Man page |
| safely_connect | Man page |
| search_and_cache | Man page |
| searchterm_gen | Man page |
| seeds_blast | Man page |
| seq_download | Man page |
| seqarc_gen | Man page |
| seqrec_augment | Man page |
| seqrec_convert | Man page |
| seqrec_gen | Man page |
| seqrec_get | Man page |
| setup | Man page |
| show,ClstrArc-method | Man page |
| show,ClstrRec-method | Man page |
| show,Phylota-method | Man page |
| show,SeqArc-method | Man page |
| show,SeqRec-method | Man page |
| show,TaxDict-method | Man page |
| show,TaxRec-method | Man page |
| sids_check | Man page |
| sids_get | Man page |
| sids_load | Man page |
| sids_save | Man page |
| sqs_count | Man page |
| sqs_load | Man page |
| sqs_save | Man page |
| stage_args_check | Man page |
| stages_run | Man page |
| str,ClstrArc-method | Man page |
| str,ClstrRec-method | Man page |
| str,Phylota-method | Man page |
| str,SeqArc-method | Man page |
| str,SeqRec-method | Man page |
| str,TaxDict-method | Man page |
| str,TaxRec-method | Man page |
| sturgeons | Man page |
| summary,ClstrArc-method | Man page |
| summary,ClstrRec-method | Man page |
| summary,Phylota-method | Man page |
| summary,SeqArc-method | Man page |
| summary,SeqRec-method | Man page |
| summary,TaxDict-method | Man page |
| summary,TaxRec-method | Man page |
| summary_phylota | Man page |
| tardigrades | Man page |
| tax_download | Man page |
| taxdict_gen | Man page |
| taxise_run | Man page |
| taxtree_gen | Man page |
| tinamous | Man page |
| txids_get | Man page |
| txnds_count | Man page |
| update_phylota | Man page |
| warn | Man page |
| write_sqs | Man page |
| yeasts | Man page |
