| /dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/utils/codecs/refseq/ |
| H A D | RefSeqFeature.java | 18 private String transcript_id; field in RefSeqFeature
129 public void setTranscript_id(String transcript_id) { in setTranscript_id()
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| /dports/biology/py-gffutils/gffutils-0.10.1/gffutils/scripts/ |
| H A D | gffutils-flybase-convert.py | 108 transcript_id = child.id variable
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| /dports/biology/artemis/artemis-17.0.1-11-g3e43d27e/uk/ac/sanger/artemis/io/ |
| H A D | ChadoCanonicalGene.java | 891 String transcript_id = getQualifier(transcript, "ID"); in isSplicedFeatures() local
949 public String autoGenerateSplicedFeatureName(final String transcript_id) in autoGenerateSplicedFeatureName()
1004 public String autoGeneratePepName(final String transcript_id) in autoGeneratePepName()
1055 public String autoGenerateFeatureName(final String transcript_id, in autoGenerateFeatureName()
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| H A D | GFFDocumentEntry.java | 334 String transcript_id = null; in combineGeneFeatures() local
605 String transcript_id = null; in combineChadoExons() local
646 final String transcript_id, in mergeFeatures()
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| H A D | IndexedGFFDocumentEntry.java | 596 String transcript_id = (String)(transcript.getQualifierByName("ID").getValues().get(0)); in combineChadoExons() local
628 final String transcript_id) in mergeFeatures()
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| /dports/biology/subread/subread-2.0.2-source/src/ |
| H A D | tx-unique.h | 17 char transcript_id[FEATURE_NAME_LENGTH]; member
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| H A D | tx-unique.c | 40 int txunique_do_add_exon(char * gene_name, char * transcript_id, char * chrome_name, unsigned int s… in txunique_do_add_exon()
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| H A D | HelperFunctions.c | 1077 char * token_temp = NULL, * feature_name, *transcript_id = NULL, * chro_name = NULL; in load_features_annotation() local
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| H A D | core-indel.c | 1233 int do_juncs_add_feature(char * gene_name, char * transcript_id, char * chro_name, unsigned int fea… in do_juncs_add_feature()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/edit/ |
| H A D | feattable_edit.cpp | 493 string transcript_id = mrna.GetNamedQual("transcript_id"); in s_GetTranscriptIdFromMrna() local
519 string transcript_id = cds.GetNamedQual("transcript_id"); in xAddTranscriptAndProteinIdsToCdsAndParentMrna() local
601 string transcript_id = mrna.GetNamedQual("transcript_id"); in xAddTranscriptAndProteinIdsToMrna() local
649 string transcript_id = mrna.GetNamedQual("transcript_id"); in xAddTranscriptAndProteinIdsToUnmatchedMrna() local
702 string& transcript_id, in xConvertToGeneralIds()
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objtools/edit/ |
| H A D | feattable_edit.cpp | 497 string transcript_id = mrna.GetNamedQual("transcript_id"); in s_GetTranscriptIdFromMrna() local
523 string transcript_id = cds.GetNamedQual("transcript_id"); in xAddTranscriptAndProteinIdsToCdsAndParentMrna() local
614 string transcript_id = mrna.GetNamedQual("transcript_id"); in xAddTranscriptAndProteinIdsToMrna() local
662 string transcript_id = mrna.GetNamedQual("transcript_id"); in xAddTranscriptAndProteinIdsToUnmatchedMrna() local
715 string& transcript_id, in xConvertToGeneralIds()
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| /dports/biology/artemis/artemis-17.0.1-11-g3e43d27e/uk/ac/sanger/artemis/components/genebuilder/ |
| H A D | GeneComponentTree.java | 136 String transcript_id; in createNodes() local
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| H A D | GeneViewerPanel.java | 1059 String transcript_id = getQualifier( embl_transcript, "ID" ); in drawTranscriptOnLine() local
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| /dports/biology/py-deeptoolsintervals/deeptoolsintervals-0.1.9/deeptoolsintervals/tree/ |
| H A D | tree.c | 238 char *chrom = NULL, *name = NULL, *transcript_id = NULL, strandChar; in pyFindOverlaps() local
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| H A D | gtf.h | 51 int32_t transcript_id; member
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| /dports/biology/p5-transdecoder/TransDecoder-TransDecoder-v5.4.0/PerlLib/ |
| H A D | GTF.pm | 3961 sub transcript_id{ subroutine
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/writers/ |
| H A D | fasta_writer.cpp | 921 string transcript_id = feat.GetNamedQual("transcript_id"); in x_AddTranscriptIdAttribute() local
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| H A D | gff3_writer.cpp | 2000 string transcript_id; in xAssignFeatureAttributeTranscriptId() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/table2asn/ |
| H A D | feature_table_reader.cpp | 534 const auto& transcript_id = cds.GetNamedQual("transcript_id"); in x_FindMrnaByQual() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objmgr/util/ |
| H A D | sequence.cpp | 1632 string transcript_id = cds_feat.GetNamedQual("transcript_id"); in GetBestMrnaForCds() local
1900 string transcript_id = mrna_feat.GetNamedQual("transcript_id"); in GetBestCdsForMrna() local
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| /dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/objmgr/util/ |
| H A D | sequence.cpp | 1632 string transcript_id = cds_feat.GetNamedQual("transcript_id"); in GetBestMrnaForCds() local
1900 string transcript_id = mrna_feat.GetNamedQual("transcript_id"); in GetBestCdsForMrna() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/misc/discrepancy/ |
| H A D | feature_tests.cpp | 2245 transcript_id = false; in IsmRnaQualsPresent() local
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| /dports/biology/ncbi-toolkit/ncbi/sequin/ |
| H A D | sequin2.c | 8106 static SeqEntryPtr FindSeqEntryWithTranscriptID (SeqEntryPtr sep, CharPtr transcript_id) in FindSeqEntryWithTranscriptID()
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