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Searched defs:tax_id (Results 1 – 25 of 91) sorted by relevance

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/dports/biology/py-orange3-bioinformatics/Orange3-Bioinformatics-4.3.1/orangecontrib/bioinformatics/ncbi/taxonomy/
H A D__init__.py69 def common_taxid_to_name(tax_id): argument
97 def shortname(tax_id): argument
109 def name(tax_id): argument
124 def other_names(tax_id): argument
152 def lineage(tax_id): argument
H A Dutils.py108 def get_all_strains(self, tax_id): argument
147 def __node_query(self, tax_id): argument
161 def __getitem__(self, tax_id): argument
216 def strains(self, tax_id): argument
234 def lineage(self, tax_id): argument
245 def parent_tax_id(self, tax_id): argument
257 def child_tax_ids(self, tax_id): argument
272 def name(self, tax_id): argument
275 def synonyms(self, tax_id): argument
/dports/biology/ncbi-toolkit/ncbi/network/taxon1/taxon2/
H A Dtxcdproc.c487 Int4 tax_id; in s_getdesignator() local
516 Int4 tax_id= 0; in getdesignator() local
543 Int4 tax_id; in s_getunique() local
572 Int4 tax_id= 0; in getunique() local
600 Int4 tax_id; in s_getidbyorg() local
629 Int4 tax_id= 0; in getidbyorg() local
662 Int4 tax_id; in tax_getIdByName() local
1375 Int4 tax_id; in s_getTaxId4GI() local
1403 Int4 tax_id= 0; in getTaxId4GI() local
1430 Int4 tax_id; in s_maxTaxId() local
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H A Dtc2proc.c51 Int4 tax_id; member
408 Int4 tax_id, id; in getIdByOrgRef() local
696 Taxon2DataPtr tax1m_getbyid(Int4 tax_id) in tax1m_getbyid()
723 Taxon1DataPtr tax1_getbyid(Int4 tax_id) in tax1_getbyid()
1800 Int4 tax_id; in tax1m_lookup() local
1842 Int4 tax_id; in tax1_lookup() local
1897 Boolean tax1e_invokeNode(Int4 tax_id) in tax1e_invokeNode()
1902 Boolean tax1e_invokeChildren(Int4 tax_id) in tax1e_invokeChildren()
1948 Int4 tax_id; in tax1_getTaxId4Str() local
2177 Int4 tax_id; in tax1e_needUpdate() local
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H A Dtxcproc.c123 CS_INT res_type, rows_read, tax_id; in tax_findByName() local
269 CS_INT res_type, rows_read, tax_id= 0; in tax_getDesignator() local
364 CS_INT res_type, rows_read, tax_id= 0; in tax_uniqueName() local
467 CS_INT res_type, rows_read, tax_id= 0; in tax_getIdByName() local
585 Int4 tax_getOrgNames(Int4 tax_id, TaxNamePtr* res_name) in tax_getOrgNames()
723 TXC_NodeDataPtr txc_getOrgData(Int4 tax_id) in txc_getOrgData()
1240 CS_INT res_type, rows_read, tax_id, flags; in txc_getLineage() local
2106 _subspecPtr tax_SSget(Int4 tax_id, _subspecPtr ssrec) in tax_SSget()
2243 tax_OrgModPtr tax_SSgetLegal(Int4 tax_id) in tax_SSgetLegal()
2379 CS_INT tax_id; in tax_SSgetNodes() local
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H A Dparttree.c201 Boolean tax_ptree_addNode(TreePtr ptree, Int4 tax_id) in tax_ptree_addNode()
277 Boolean tax_ptree_toTaxId(TreeCursorPtr cursor, Int4 tax_id, Boolean search_in_subtree) in tax_ptree_toTaxId()
/dports/biology/diamond/diamond-2.0.13/src/output/
H A Dblast_tab_format.cpp304 const vector<unsigned> tax_id = cfg.db->taxids(r.subject_oid); in print_match() local
309 …const set<unsigned> tax_id = cfg.taxon_nodes->rank_taxid(cfg.db->taxids(r.subject_oid), Rank::supe… in print_match() local
381 …const set<unsigned> tax_id = cfg.taxon_nodes->rank_taxid(cfg.db->taxids(r.subject_oid), Rank::king… in print_match() local
386 …const set<unsigned> tax_id = cfg.taxon_nodes->rank_taxid(cfg.db->taxids(r.subject_oid), Rank::phyl… in print_match() local
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/sequence/
H A Dalign_group.cpp112 TTaxId tax_id = *iter->first.begin(); in GroupByLikeTaxIds() local
468 TTaxId tax_id = x_GetTaxId(idh, scope); in x_SeparateByTaxId() local
479 TTaxId tax_id = ZERO_TAX_ID; in x_GetTaxId() local
500 CConstRef<COrg_ref> CAlignGroup::x_GetOrgRef(TTaxId tax_id) in x_GetOrgRef()
530 TTaxId tax_id = x_GetTaxId(id, scope); in x_GetOrgRef() local
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/taxon1/
H A Dtaxon1.cpp230 CTaxon1::GetById(TTaxId tax_id) in GetById()
704 CTaxon1::GetOrgRef(TTaxId tax_id, in GetOrgRef()
1222 TTaxId tax_id = ZERO_TAX_ID; in Join() local
1248 CTaxon1::GetAllNames(TTaxId tax_id, TNameList& lNames, bool unique) in GetAllNames()
1405 CTaxon1::GetBlastName(TTaxId tax_id, string& blast_name_out ) in GetBlastName()
1746 CTaxon1::GetTreeIterator( TTaxId tax_id, CTaxon1::EIteratorMode mode ) in GetTreeIterator()
1768 CTaxon1::GetNodeProperty( TTaxId tax_id, const string& prop_name, in GetNodeProperty()
1821 CTaxon1::GetNodeProperty( TTaxId tax_id, const string& prop_name, in GetNodeProperty()
1874 CTaxon1::GetNodeProperty( TTaxId tax_id, const string& prop_name, in GetNodeProperty()
2296 CTaxon1::GetDisplayCommonName( TTaxId tax_id, string& disp_name_out ) in GetDisplayCommonName()
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H A Dcache.cpp103 COrgRefCache::Lookup( TTaxId tax_id, CTaxon1Node** ppNode ) in Lookup()
114 COrgRefCache::LookupAndAdd( TTaxId tax_id, CTaxon1Node** ppData ) in LookupAndAdd()
181 COrgRefCache::LookupAndInsert( TTaxId tax_id, CTaxon2_data** ppData ) in LookupAndInsert()
203 COrgRefCache::Lookup( TTaxId tax_id, CTaxon2_data** ppData ) in Lookup()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objects/taxon1/
H A Dtaxon1.cpp230 CTaxon1::GetById(TTaxId tax_id) in GetById()
704 CTaxon1::GetOrgRef(TTaxId tax_id, in GetOrgRef()
1222 TTaxId tax_id = ZERO_TAX_ID; in Join() local
1248 CTaxon1::GetAllNames(TTaxId tax_id, TNameList& lNames, bool unique) in GetAllNames()
1405 CTaxon1::GetBlastName(TTaxId tax_id, string& blast_name_out ) in GetBlastName()
1746 CTaxon1::GetTreeIterator( TTaxId tax_id, CTaxon1::EIteratorMode mode ) in GetTreeIterator()
1768 CTaxon1::GetNodeProperty( TTaxId tax_id, const string& prop_name, in GetNodeProperty()
1821 CTaxon1::GetNodeProperty( TTaxId tax_id, const string& prop_name, in GetNodeProperty()
1874 CTaxon1::GetNodeProperty( TTaxId tax_id, const string& prop_name, in GetNodeProperty()
2296 CTaxon1::GetDisplayCommonName( TTaxId tax_id, string& disp_name_out ) in GetDisplayCommonName()
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H A Dcache.cpp103 COrgRefCache::Lookup( TTaxId tax_id, CTaxon1Node** ppNode ) in Lookup()
114 COrgRefCache::LookupAndAdd( TTaxId tax_id, CTaxon1Node** ppData ) in LookupAndAdd()
181 COrgRefCache::LookupAndInsert( TTaxId tax_id, CTaxon2_data** ppData ) in LookupAndInsert()
203 COrgRefCache::Lookup( TTaxId tax_id, CTaxon2_data** ppData ) in Lookup()
/dports/biology/iqtree/IQ-TREE-2.0.6/nclextra/
H A Dmpdablock.cpp198 int tax_id = -1; in Read() local
303 int tax_id = -1; in readBudgetFile() local
H A Dmpdablock.h106 double getCost(int tax_id) { in getCost()
/dports/biology/py-orange3-bioinformatics/Orange3-Bioinformatics-4.3.1/orangecontrib/bioinformatics/geneset/
H A D__init__.py48 def load_gene_sets(hierarchy, tax_id): argument
/dports/finance/frontaccounting/frontaccounting/reporting/
H A Drep114.php31 function getTaxTransactions($from, $to, $tax_id)
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objects/taxon1/
H A Dtaxon1.hpp488 bool LoadNode( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadNode()
498 bool LoadChildren( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadChildren()
507 bool LoadSubtree( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadSubtree()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objects/taxon1/
H A Dtaxon1.hpp488 bool LoadNode( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadNode()
498 bool LoadChildren( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadChildren()
507 bool LoadSubtree( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadSubtree()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/trackmgr/
H A DTMgr_DisplayTrackRequest.cpp74 CTMgr_DisplayTrackRequest::AddAssemblyNameTax(const string& name, int tax_id) in AddAssemblyNameTax()
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objects/trackmgr/
H A DTMgr_DisplayTrackRequest.cpp74 CTMgr_DisplayTrackRequest::AddAssemblyNameTax(const string& name, int tax_id) in AddAssemblyNameTax()
/dports/biology/ncbi-toolkit/ncbi/network/taxon1/common/
H A Dcheckid.c64 Int4 tax_id; in CheckTaxId() local
/dports/www/ilias6/ILIAS-6.14/Services/Taxonomy/GlobalScreen/classes/
H A Dclass.ilTaxonomyGSToolProvider.php75 private function getEditTree($gui_path, $tax_id, $cmd, $parent_cmd) : string
/dports/biology/iqtree/IQ-TREE-2.0.6/pda/
H A Dsplit.cpp286 void Split::addTaxon(int tax_id) in addTaxon()
297 void Split::removeTaxon(int tax_id) in removeTaxon()
309 bool Split::containTaxon(int tax_id) in containTaxon()
444 bool Split::containAny(IntVector &tax_id) { in containAny()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/gi2taxid/
H A Dgi2taxid.cpp140 TTaxId tax_id = ZERO_TAX_ID; in Run() local
/dports/biology/py-orange3-bioinformatics/Orange3-Bioinformatics-4.3.1/orangecontrib/bioinformatics/ncbi/gene/
H A D__init__.py79 def tax_id(self): member in GeneMatcher
83 def tax_id(self, tax_id: str) -> None: member in GeneMatcher

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