seqrec_gen: Generate sequence record

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

Description

Creates an S4 SeqRec

Usage

seqrec_gen(accssn, nm, txid, sq, dfln, orgnsm, ml_typ, rec_typ, vrsn, age,
  lctn = NULL)

Arguments

accssn	Accession ID
nm	Sequence name
txid	Taxonomic ID of source organism
sq	Sequence
dfln	Definition line
orgnsm	Source organism name
ml_typ	Molecule type
rec_typ	Sequence record type
vrsn	Accession version
age	Number of days since upload
lctn	Location numbers for features, e.g. '1..200'

Value

SeqRec

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_get, sids_check, sids_get, sids_load, sids_save, sqs_count, sqs_load, sqs_save, stage_args_check, stages_run, tax_download, taxdict_gen, taxtree_gen, txids_get, txnds_count, warn

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