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 Source code
blast_clstr Man page Source code
blast_filter Man page Source code
blast_setup Man page Source code
blast_sqs Man page Source code
blastcache_load Man page Source code
blastcache_save Man page Source code
blastdb_gen Man page Source code
blastn_run Man page Source code
bromeliads Man page
cache_rm Man page Source code
cache_setup Man page Source code
calc_mad Man page Source code
calc_wrdfrq Man page Source code
clade_select Man page Source code
cleanup Source code
clstr2_calc Man page Source code
clstr_all Man page Source code
clstr_direct Man page Source code
clstr_sqs Man page Source code
clstr_subtree Man page Source code
clstrarc_check Source code
clstrarc_gen Man page Source code
clstrarc_join Man page Source code
clstrrec_gen Man page Source code
clstrs_calc Man page Source code
clstrs_join Man page Source code
clstrs_merge Man page Source code
clstrs_renumber Man page Source code
clstrs_save Man page Source code
clusters2_run Man page Source code
clusters_run Man page Source code
cmdln Man page Source code
cmdln_blastcheck Source code
cycads Man page
datadir_get Source code
descendants_get Man page Source code
download_obj_check Man page Source code
download_run Man page Source code
dragonflies Man page
drop_by_rank Man page Source code
drop_clstrs Man page Source code
drop_sqs Man page Source code
error Man page Source code
get_clstr_slot Man page Source code
get_nsqs Man page Source code
get_ntaxa Man page Source code
get_sq_slot Man page Source code
get_stage_times Man page Source code
get_tx_slot Man page Source code
get_txids Man page Source code
hierarchic_download Man page Source code
info Man page Source code
is_txid_in_clstr Man page Source code
is_txid_in_sq Man page Source code
list_clstrrec_slots Man page Source code
list_ncbi_ranks Man page Source code
list_seqrec_slots Man page Source code
list_taxrec_slots Man page Source code
log Source code
mk_txid_in_sq_mtrx Man page Source code
ncbicache_load Man page Source code
ncbicache_save Man page Source code
obj_check Man page Source code
obj_load Man page Source code
obj_save Man page Source code
parameters Man page Source code
parameters_load Man page Source code
parameters_reset Man page Source code
parameters_setup Man page Source code
parent_get Man page Source code
phylota_check Source code
plot_phylota_pa Man page Source code
plot_phylota_treemap Man page Source code
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 Source code
progress_read Man page Source code
progress_reset Man page Source code
progress_save Man page Source code
random_phylota Source code
rank_get Man page Source code
read_phylota Man page Source code
reset Man page Source code
restart Man page Source code
run Man page Source code
safely_connect Man page Source code
search_and_cache Man page Source code
searchterm_gen Man page Source code
seeds_blast Man page Source code
seq_download Man page Source code
seqarc_check Source code
seqarc_gen Man page Source code
seqrec_augment Man page Source code
seqrec_convert Man page Source code
seqrec_gen Man page Source code
seqrec_get Man page Source code
setup Man page Source code
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 Source code
sids_get Man page Source code
sids_load Man page Source code
sids_save Man page Source code
sqs_count Man page Source code
sqs_load Man page Source code
sqs_save Man page Source code
stage_args_check Man page Source code
stages_run Man page Source code
stgMsg Source code
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 Source code
tardigrades Man page
tax_download Man page Source code
taxdict_check Source code
taxdict_gen Man page Source code
taxise_run Man page Source code
taxrec_check Source code
taxtree_gen Man page Source code
testsqs_gen Source code
tinamous Man page
txids_get Man page Source code
txnds_count Man page Source code
untar Source code
update_phylota Man page Source code
warn Man page Source code
write_sqs Man page Source code
yeasts Man page
phylotaR documentation built on July 31, 2018, 5:01 p.m.