| /dports/biology/py-crossmap/CrossMap-0.5.4/lib/cmmodule/ |
| H A D | fasta.py | 68 def getSeq(self,seqID=None): argument
83 def getSeqLen(self,seqID=None): argument
115 def revComp(self,seqID=None): argument
144 def findPattern(self,pat,outfile,seqID=None,rev=True): argument
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| /dports/biology/velvet/velvet_1.2.10/contrib/MetaVelvet-v0.3.1/src/ |
| H A D | splay.c | 37 IDnum seqID; member
193 findOrInsertOccurenceInSplayTree(Kmer * kmer, IDnum * seqID, in findOrInsertOccurenceInSplayTree()
247 placeOccurenceInSplayTree(Kmer * kmer, IDnum * seqID, in placeOccurenceInSplayTree()
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| H A D | graphReConstruction.c | 368 IDnum seqID, Category category, in ghostThreadSequenceThroughGraph()
487 IDnum seqID, Category category, in threadSequenceThroughGraph()
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| /dports/biology/velvet/velvet_1.2.10/src/ |
| H A D | splay.c | 42 IDnum seqID; member
208 findOrInsertOccurenceInSplayTree(Kmer * kmer, IDnum * seqID, in findOrInsertOccurenceInSplayTree()
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| H A D | splayTable.c | 342 doFindOrInsertOccurenceInSplayTree(Kmer * kmer, IDnum * seqID, in doFindOrInsertOccurenceInSplayTree()
362 static boolean findOrInsertOccurenceInSplayTable(Kmer * kmer, IDnum * seqID, in findOrInsertOccurenceInSplayTable()
414 FILE * file, boolean second_in_pair, IDnum seqID) in printAnnotations()
611 …ate ** coords, IDnum * mapReferenceIDs, Coordinate * mapCoords, Coordinate mapCount, IDnum seqID) { in computeClearHSPs()
736 IDnum seqID) in inputSequenceIntoSplayTable()
758 SplayTable * table, FILE * file, IDnum seqID, Mask * mask) in inputReferenceIntoSplayTable()
1007 IDnum seqID = 0; in inputSequenceArrayIntoSplayTableAndArchive() local
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| H A D | roadMap.c | 101 IDnum seqID; in importRoadMapArray() local
198 IDnum seqID; in importReferenceRoadMapArray() local
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| H A D | graphReConstruction.c | 362 static ReferenceMapping * findReferenceMapping(IDnum seqID, Coordinate refCoord, ReferenceMapping *… in findReferenceMapping()
633 IDnum seqID, Category category, in ghostThreadSequenceThroughGraph()
804 IDnum seqID, Category category, in threadSequenceThroughGraph()
1225 IDnum seqID, Category category, in addReadsToGraph()
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| /dports/biology/velvet/velvet_1.2.10/contrib/MetaVelvet-1.2.01/Velvet-1.1.06/ |
| H A D | splay.c | 42 IDnum seqID; member
208 findOrInsertOccurenceInSplayTree(Kmer * kmer, IDnum * seqID, in findOrInsertOccurenceInSplayTree()
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| H A D | splayTable.c | 346 doFindOrInsertOccurenceInSplayTree(Kmer * kmer, IDnum * seqID, in doFindOrInsertOccurenceInSplayTree()
366 static boolean findOrInsertOccurenceInSplayTable(Kmer * kmer, IDnum * seqID, in findOrInsertOccurenceInSplayTable()
415 FILE * file, boolean second_in_pair, IDnum seqID) in printAnnotations()
612 …lean second_in_pair, SplayTable * table, IDnum ** sequenceIDs, Coordinate ** coords, IDnum seqID) { in computeClearHSPs()
782 IDnum seqID) in inputSequenceIntoSplayTable()
802 SplayTable * table, FILE * file, IDnum seqID, Mask * mask) in inputReferenceIntoSplayTable()
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| H A D | roadMap.c | 101 IDnum seqID; in importRoadMapArray() local
198 IDnum seqID; in importReferenceRoadMapArray() local
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| /dports/biology/seqan-apps/seqan-seqan-v2.4.0/include/seqan/rna_io/ |
| H A D | rna_record.h | 226 StringSet<CharString> seqID; variable
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| /dports/biology/seqan/seqan-library-2.4.0/include/seqan/rna_io/ |
| H A D | rna_record.h | 226 StringSet<CharString> seqID; variable
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| /dports/net/storj/storj-1.45.3/vendor/github.com/apache/thrift/lib/csharp/src/Protocol/ |
| H A D | TMessage.cs | 34 private int seqID; field
|
| /dports/www/fabio/fabio-1.5.14/vendor/github.com/apache/thrift/thrift-da1169d75b15/lib/csharp/src/Protocol/ |
| H A D | TMessage.cs | 34 private int seqID; field
|
| /dports/misc/concourse/concourse-6.7.2/vendor/github.com/apache/thrift/lib/csharp/src/Protocol/ |
| H A D | TMessage.cs | 34 private int seqID; field
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| /dports/devel/fbthrift/fbthrift-2021.12.27.00/thrift/lib/go/thrift/ |
| H A D | serial_channel.go | 29 seqID int32 member
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| H A D | clientconn.go | 29 seqID int32 member
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| H A D | clientconn_test.go | 45 seqID int32 member
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| /dports/graphics/openjpeg15/openjpeg-version.1.5.2/applications/jpip/libopenjpip/ |
| H A D | jp2k_encoder.c | 426 Byte8_t seqID; in recons_RPCLbitstream() local
448 Byte8_t seqID; in recons_PCRLbitstream() local
480 Byte8_t seqID; in recons_CPRLbitstream() local
522 Byte8_t seqID, precID, binOffset; in recons_packet() local
559 int comp_idx, int res_idx, Byte8_t seqID, Byte8_t *j2klen) in recons_precinct()
593 Byte8_t seqID = 0; in comp_seqID() local
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| /dports/graphics/openjpeg/openjpeg-2.4.0/src/lib/openjpip/ |
| H A D | jp2k_encoder.c | 487 Byte8_t seqID; in recons_RPCLbitstream() local
513 Byte8_t seqID; in recons_PCRLbitstream() local
548 Byte8_t seqID; in recons_CPRLbitstream() local
598 Byte8_t seqID, precID, binOffset; in recons_packet() local
639 int comp_idx, int res_idx, Byte8_t seqID, Byte8_t *j2klen) in recons_precinct()
678 Byte8_t seqID = 0; in comp_seqID() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/cn3d/ |
| H A D | file_messaging.cpp | 485 bool SeqIdToIdentifier(const CRef < ncbi::objects::CSeq_id >& seqID, string& identifier) in SeqIdToIdentifier()
511 bool IdentifierToSeqId(const string& identifier, CRef < ncbi::objects::CSeq_id >& seqID) in IdentifierToSeqId()
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| /dports/biology/viennarna/ViennaRNA-2.4.18/src/RNAforester/src/ |
| H A D | parser.cpp | 14 int seqID = 0; in parseXMLFile() local
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| /dports/biology/iqtree/IQ-TREE-2.0.6/alignment/ |
| H A D | maalignment.cpp | 149 int seqID; in printPatObsExpFre() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/align_format/ |
| H A D | seqalignfilter.cpp | 709 CRef<CSeq_id> seqID; in s_ModifySeqAlnWithFilteredSeqIDs() local
805 … CRef<CSeq_id> seqID = FindBestChoice(cur_id, CSeq_id::WorstRank); in s_ModifySeqAlnWithFilteredSeqIDs() local
821 CRef<CSeq_id> seqID (new CSeq_id(*(use_this_seq.begin()))); in s_ModifySeqAlnWithFilteredSeqIDs() local
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/align_format/ |
| H A D | seqalignfilter.cpp | 708 CRef<CSeq_id> seqID; in s_ModifySeqAlnWithFilteredSeqIDs() local
804 … CRef<CSeq_id> seqID = FindBestChoice(cur_id, CSeq_id::WorstRank); in s_ModifySeqAlnWithFilteredSeqIDs() local
820 CRef<CSeq_id> seqID (new CSeq_id(*(use_this_seq.begin()))); in s_ModifySeqAlnWithFilteredSeqIDs() local
|