SequenceVariantsCriteria
This section describes the Sequence Variants criteria classes.
| Name | Description | Required | Schema | Default |
|---|---|---|---|---|
| exclude | false | boolean | false | |
| radioOptionMode | Indicates the mode selected. The possible modes are VAR_IN_SELECTED_GENES, SELECTED_GEN_VARS, VARS_IN_GEN_REGION, ZYGOSITY and GENOTYPE | false | enum (VAR_IN_SELECTED_GENES, SELECTED_GEN_VARS, VARS_IN_GEN_REGION, ZYGOSITY, GENOTYPE) | |
| genotypeScenario | This option lets you search for patients/subjects having genotypes in specific combination. You can search for combinations :
|
false | enum (WILDTYPE_WILDTYPE, WILDTYPE_MUTANT, MUTANT1_MUTANT1, MUTANT1_MUTANT2) | |
| genotypesAlignment | Genotype Alignment Name | false | string | |
| genotypesPosition | Genotype Position | false | string | |
| variantIdList | List of Variant IDs | false | string array | |
| variantTypesList | List of Variant IDs | false | VariantTypeAndImpact array | |
| polyphenSelected | Indicates if PolyPhen (Polymorphism Phenotyping) must be used as a filter criteria | false | boolean | false |
| polyphenPredictionValueRange | false | NumberRangeFilter | ||
| polyphenPredictionLabelList | List of Nonsynonymous Substitution Scores PolyPhen (Polymorphism Phenotyping) Prediction Labels. For example, benign, unknown | false | string array | |
| polyphenTranscriptIdList | List of Nonsynonymous Substitution Scores PolyPhen (Polymorphism Phenotyping) Transcript IDs | false | string array | |
| siftSelected | Indicates if SIFT must be used as a filter criteria | false | boolean | false |
| siftValueRange | false | NumberRangeFilter | ||
| siftLabelList | List of Nonsynonymous Substitution Scores SIFT Labels. For example, benign, unknown. | false | string array | |
| siftLabelTranscriptIdList | List of Nonsynonymous Substitution Scores SIFT Transcript IDs | false | string array | |
| siftReferenceVersionList | List of SIFT Reference Versions | false | string array | |
| polyphenReferenceVersionList | List of PolyPhen (Polymorphism Phenotyping) Reference Versions | false | string array | |
| variantStatusList | List of Variant Statuses. For example, KNOWN, NOVEL | false | string array | |
| strandList | List of Strands. For example, + or - | false | string array | |
| fileTypeVCFSelected | Selected File Type is VCF | false | boolean | false |
| fileTypeMAFSelected | Selected File Type is MAF | false | boolean | false |
| fileTypeCGISelected | Selected File Type is CGI | false | boolean | false |
| formatGQRange | Range of Format GQ (Only for File Type : VCF) | false | NumberRangeFilter | |
| somaticStatusList | List of Somatic Statuses (Only for File Type : VCF) | false | string array | |
| somaticScoreRange | Range of Somatic Scores (Only for File Type : VCF) | false | NumberRangeFilter | |
| alleleReadCountRange | Range of Allele Read Count (Only for File Type : VCF) | false | NumberRangeFilter | |
| referenceReadCountRange | Range of Reference Read Count (Only for File Type : VCF) | false | NumberRangeFilter | |
| totalReadCountRange | Range of Total Read Count (Only for File Type : VCF) | false | NumberRangeFilter | |
| rmsBaseQualityRange | Range of RMS Base Quality (Only for File Type : VCF) | false | NumberRangeFilter | |
| rmsMappingQualityRange | Range of RMS Mapping Quality (Only for File Type : VCF) | false | NumberRangeFilter | |
| adDpRatioRange | Range of AD/DP Ratio (Only for File Type : VCF) | false | NumberRangeFilter | |
| mafScoreRange | Range of MAF Score (Only for File Type : MAF) | false | NumberRangeFilter | |
| alleleZygosityList | List of Allele Zygosities (Only for File Type : CGI) For example, homozygous, heterozygous | false | string array | |
| cgiVAFScoreRange | Range of VAF Scores (Only for File Type : CGI) | false | NumberRangeFilter | |
| cgiEAFScoreRange | Range of EAF Scores (Only for File Type : CGI) | false | NumberRangeFilter | |
| cgiAlleleReadCountRange | Range of Allele Read Counts (Only for File Type : CGI) | false | NumberRangeFilter | |
| cgiReferenceReadCountRange | Range of Reference Read Counts (Only for File Type : CGI) | false | NumberRangeFilter | |
| genotypesChromosomeId | Genotype Chromosome ID | false | string | |
| genotypesVariantId | Genotype Variant ID (RowWid of the Variant) | false | string | |
| genotypesVariantId2 | Second Genotype Variant ID(RowWid of the Variant) | false | string | |
| zygosityList | list of Zygosities | false | string array |