public class ClinicalVariantParser extends CellBaseParser
logger, serializer
Constructor and Description |
---|
ClinicalVariantParser(Path clinicalVariantFolder,
boolean normalize,
Path genomeSequenceFilePath,
String assembly,
CellBaseSerializer serializer) |
ClinicalVariantParser(Path clinvarXMLFile,
Path clinvarSummaryFile,
Path clinvarVariationAlleleFile,
Path clinvarEFOFile,
Path cosmicFile,
Path gwasFile,
Path dbsnpFile,
Path iarctp53GermlineFile,
Path iarctp53GermlineReferencesFile,
Path iarctp53SomaticFile,
Path iarctp53SomaticReferencesFile,
Path docmFile,
boolean normalize,
Path genomeSequenceFilePath,
String assembly,
CellBaseSerializer serializer) |
Modifier and Type | Method and Description |
---|---|
void |
parse() |
disconnect
public ClinicalVariantParser(Path clinicalVariantFolder, boolean normalize, Path genomeSequenceFilePath, String assembly, CellBaseSerializer serializer)
public ClinicalVariantParser(Path clinvarXMLFile, Path clinvarSummaryFile, Path clinvarVariationAlleleFile, Path clinvarEFOFile, Path cosmicFile, Path gwasFile, Path dbsnpFile, Path iarctp53GermlineFile, Path iarctp53GermlineReferencesFile, Path iarctp53SomaticFile, Path iarctp53SomaticReferencesFile, Path docmFile, boolean normalize, Path genomeSequenceFilePath, String assembly, CellBaseSerializer serializer)
public void parse() throws IOException, org.rocksdb.RocksDBException
parse
in class CellBaseParser
IOException
org.rocksdb.RocksDBException
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