Package au.org.intersect.samifier.domain

Examples of au.org.intersect.samifier.domain.GffOutputterGenerator

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        VirtualProteinMascotLocationGenerator locationGenerator = new VirtualProteinMascotLocationGenerator(
                searchResultsPaths, translationTableFile, genomeFile,
                chromosomeDir, confidenceScore);
        List<ProteinLocation> locations = locationGenerator.generateLocations();
        Collections.sort(locations);
        GffOutputterGenerator outputterGenerator = new GffOutputterGenerator(genomeFile.getName());
        ProteinLocationFileGenerator.generateFile(locations, outputFile, outputterGenerator, "##gff-version 3");
    }
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    }

    private void generateGffFile(List<ProteinLocation> locations)
            throws IOException {
        String genomeFileName = genomeFile.getName();
        GffOutputterGenerator outputterGenerator = new GffOutputterGenerator(genomeFileName);
        ProteinLocationFileGenerator.generateFile(locations, gffWriter,
                outputterGenerator, "##gff-version 3");
    }
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Related Classes of au.org.intersect.samifier.domain.GffOutputterGenerator

  • au.org.intersect.samifier.runner.ProteinGeneratorRunner
  • au.org.intersect.samifier.runner.VirtualProteinMergerRunner
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