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Searched refs:transcript1 (Results 1 – 9 of 9) sorted by relevance

/dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/tools/funcotator/dataSources/gencode/
H A DDataProviderForExampleGencodeGtfGene.java362 transcript1.addExon(exon1); in createGencodeGtfGeneFeature()
363 transcript1.addExon(exon2); in createGencodeGtfGeneFeature()
364 transcript1.addExon(exon3); in createGencodeGtfGeneFeature()
365 transcript1.addExon(exon4); in createGencodeGtfGeneFeature()
366 transcript1.addExon(exon5); in createGencodeGtfGeneFeature()
367 transcript1.addUtr(utr1); in createGencodeGtfGeneFeature()
368 transcript1.addUtr(utr2); in createGencodeGtfGeneFeature()
370 gene.addTranscript(transcript1); in createGencodeGtfGeneFeature()
516 transcript1.addUtr(fivePUtr); in dynamicallyCreateTestGencodeGtfGeneFeature()
517 transcript1.addUtr(threePUtr); in dynamicallyCreateTestGencodeGtfGeneFeature()
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H A DGencodeFuncotationFactoryUnitTest.java715 …final GencodeGtfTranscriptFeature transcript1 = (GencodeGtfTranscriptFeature) GencodeGtfFeature.cr… in provideForCreateDefaultFuncotationsOnProblemVariant() local
716 gene.addTranscript(transcript1); in provideForCreateDefaultFuncotationsOnProblemVariant()
740 .setAnnotationTranscript(transcript1.getTranscriptName()) in provideForCreateDefaultFuncotationsOnProblemVariant()
748 .setGeneTranscriptType(transcript1.getTranscriptType()) in provideForCreateDefaultFuncotationsOnProblemVariant()
/dports/biology/emboss/EMBOSS-6.6.0/ajax/ensembl/
H A Denstranscript.c4437 if (!transcript1) in ensTranscriptSimilarity()
4443 if (transcript1 == transcript2) in ensTranscriptSimilarity()
7105 transcript1, in listTranscriptCompareEndAscending()
7111 if (transcript1 && (!transcript2)) in listTranscriptCompareEndAscending()
7117 if ((!transcript1) && transcript2) in listTranscriptCompareEndAscending()
7157 transcript1, in listTranscriptCompareEndDescending()
7163 if (transcript1 && (!transcript2)) in listTranscriptCompareEndDescending()
7169 if ((!transcript1) && transcript2) in listTranscriptCompareEndDescending()
7209 transcript1, in listTranscriptCompareIdentifierAscending()
7266 transcript1, in listTranscriptCompareStartAscending()
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H A Denstranscript.h243 AjBool ensTranscriptSimilarity(EnsPTranscript transcript1,
H A Densgene.c2980 EnsPTranscript transcript1 = NULL; in ensGeneSimilarity() local
3014 transcript1 = (EnsPTranscript) ajListIterGet(iter1); in ensGeneSimilarity()
3024 if (ensTranscriptSimilarity(transcript1, transcript2)) in ensGeneSimilarity()
/dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/utils/codecs/gtf/
H A DGencodeGtfCodecUnitTest.java1190 transcript1.addExon(exon1); in createGencodeGtfGene_gencode_valid_gencode_file2()
1191 transcript1.addExon(exon2); in createGencodeGtfGene_gencode_valid_gencode_file2()
1192 transcript1.addExon(exon3); in createGencodeGtfGene_gencode_valid_gencode_file2()
1201 transcript1.addUtr(utr1); in createGencodeGtfGene_gencode_valid_gencode_file2()
1202 transcript1.addUtr(utr2); in createGencodeGtfGene_gencode_valid_gencode_file2()
2268 transcript1.addUtr(utr1); in createGencodeGtfGene_gencode_and_this_is_a_valid_one_too_table()
2269 transcript1.addUtr(utr2); in createGencodeGtfGene_gencode_and_this_is_a_valid_one_too_table()
2270 transcript1.addUtr(utr3); in createGencodeGtfGene_gencode_and_this_is_a_valid_one_too_table()
3295 transcript1.addUtr(utr1); in createGencodeGtfGene_gencode_v19_and_this_is_a_valid_one_too()
3296 transcript1.addUtr(utr2); in createGencodeGtfGene_gencode_v19_and_this_is_a_valid_one_too()
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/dports/security/fizz/fizz-2021.12.27.00/fizz/protocol/test/
H A DKeySchedulerTest.cpp186 StringPiece transcript1("transcript1"); in TEST_F() local
191 EXPECT_CALL(*kd_, deriveSecret(_, _, Eq(folly::ByteRange(transcript1)))) in TEST_F()
195 ks_->getSecret(HandshakeSecrets::ServerHandshakeTraffic, transcript1); in TEST_F()
197 ks_->getSecret(HandshakeSecrets::ClientHandshakeTraffic, transcript1); in TEST_F()
/dports/biology/jalview/jalview/test/jalview/io/vcf/
H A DVCFLoaderTest.java269 SequenceI transcript1 = alignment.findName("transcript1"); in buildAlignment() local
270 from = new int[] { transcript1.getStart(), transcript1.getEnd() }; in buildAlignment()
271 transcript1.setGeneLoci("homo_sapiens", "GRCh38", "17", new MapList( in buildAlignment()
304 transcript1.addDBRef(product); in buildAlignment()
/dports/biology/artemis/artemis-17.0.1-11-g3e43d27e/uk/ac/sanger/artemis/components/
H A DEditMenu.java1463 final uk.ac.sanger.artemis.io.Feature transcript1 = chadoGene.getTranscripts().get(0); in gffMergeFeatures() local
1465 mergeQualifiers(transcript1, transcript2); in gffMergeFeatures()
1468 chadoGene.getProteinOfTranscript(GeneUtils.getUniqueName(transcript1)); in gffMergeFeatures()