/dports/biology/py-orange3-bioinformatics/Orange3-Bioinformatics-4.3.1/orangecontrib/bioinformatics/ncbi/taxonomy/ |
H A D | __init__.py | 69 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
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H A D | utils.py | 108 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
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/dports/biology/ncbi-toolkit/ncbi/network/taxon1/taxon2/ |
H A D | txcdproc.c | 487 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 [all …]
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H A D | tc2proc.c | 51 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 [all …]
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H A D | txcproc.c | 123 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 [all …]
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H A D | parttree.c | 201 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()
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/dports/biology/diamond/diamond-2.0.13/src/output/ |
H A D | blast_tab_format.cpp | 304 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
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/sequence/ |
H A D | align_group.cpp | 112 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
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/taxon1/ |
H A D | taxon1.cpp | 230 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() [all …]
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H A D | cache.cpp | 103 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()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objects/taxon1/ |
H A D | taxon1.cpp | 230 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() [all …]
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H A D | cache.cpp | 103 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()
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/dports/biology/iqtree/IQ-TREE-2.0.6/nclextra/ |
H A D | mpdablock.cpp | 198 int tax_id = -1; in Read() local 303 int tax_id = -1; in readBudgetFile() local
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H A D | mpdablock.h | 106 double getCost(int tax_id) { in getCost()
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/dports/biology/py-orange3-bioinformatics/Orange3-Bioinformatics-4.3.1/orangecontrib/bioinformatics/geneset/ |
H A D | __init__.py | 48 def load_gene_sets(hierarchy, tax_id): argument
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/dports/finance/frontaccounting/frontaccounting/reporting/ |
H A D | rep114.php | 31 function getTaxTransactions($from, $to, $tax_id)
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objects/taxon1/ |
H A D | taxon1.hpp | 488 bool LoadNode( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadNode() 498 bool LoadChildren( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadChildren() 507 bool LoadSubtree( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadSubtree()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/include/objects/taxon1/ |
H A D | taxon1.hpp | 488 bool LoadNode( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadNode() 498 bool LoadChildren( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadChildren() 507 bool LoadSubtree( TTaxId tax_id, const ITaxon1Node** ppNode = NULL ) in LoadSubtree()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objects/trackmgr/ |
H A D | TMgr_DisplayTrackRequest.cpp | 74 CTMgr_DisplayTrackRequest::AddAssemblyNameTax(const string& name, int tax_id) in AddAssemblyNameTax()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objects/trackmgr/ |
H A D | TMgr_DisplayTrackRequest.cpp | 74 CTMgr_DisplayTrackRequest::AddAssemblyNameTax(const string& name, int tax_id) in AddAssemblyNameTax()
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/dports/biology/ncbi-toolkit/ncbi/network/taxon1/common/ |
H A D | checkid.c | 64 Int4 tax_id; in CheckTaxId() local
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/dports/www/ilias6/ILIAS-6.14/Services/Taxonomy/GlobalScreen/classes/ |
H A D | class.ilTaxonomyGSToolProvider.php | 75 private function getEditTree($gui_path, $tax_id, $cmd, $parent_cmd) : string
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/dports/biology/iqtree/IQ-TREE-2.0.6/pda/ |
H A D | split.cpp | 286 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()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/gi2taxid/ |
H A D | gi2taxid.cpp | 140 TTaxId tax_id = ZERO_TAX_ID; in Run() local
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/dports/biology/py-orange3-bioinformatics/Orange3-Bioinformatics-4.3.1/orangecontrib/bioinformatics/ncbi/gene/ |
H A D | __init__.py | 79 def tax_id(self): member in GeneMatcher 83 def tax_id(self, tax_id: str) -> None: member in GeneMatcher
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