VCFProcessor 1.2.4 (2025-02-07) Compilation Date 2025-02-07_11:27:16ΒΆ
- Overview
- Functions
- General Information
- VCF Filter Functions
- CompoundHeterozygous
- DeNovo
- DeNovoRecessive
- Dominant
- FilterConsequenceLevel
- FilterF2
- FilterFrequencies
- FilterGeneCsqLevel
- FilterGeneCsqList
- FilterGenotype
- FilterGnomADFrequency
- FilterGnomADNFEFrequency
- FilterKnownID
- FilterNew
- FilterNumericInfo
- FilterSeenInGnomAD
- FoundInAllCases
- HQ
- KeepHomoAlt
- MergeVQSR
- MonoAllelicSNV
- NotFoundInAnyControl
- QC
- RandomVariants
- Recessive
- Recode
- RemoveNonSNV
- RemoveNonVariant
- SplitByChromosome
- SplitByGene
- SplitFromDB
- StrictCompoundHeterozygous
- VCF Transformation Functions
- VCF Annotation Functions
- Analysis Functions
- CheckReference
- Chi2
- CommonVariants
- CommonVariantsInSamplePairs
- CompareGenotype
- CompareToGnomAD
- CountFromPublicDB
- CountGenotypes
- CountMissing
- CountVariants
- CountVariantsFoundIn
- DbSNPMismatch
- ExtractAlleleCounts
- ExtractCanonical
- ExtractNeighbours
- ExtractPrivateToGroup
- F2
- F2Individuals
- FrequencyCorrelation
- FrequencyForPrivate
- GeneList
- GetQCMetrics
- GetWorstConsequence
- InbreedingCoeffDistribution
- IQSBySample
- IQSByVariant
- JFSSummary
- JointFrequencySpectrum
- Kappa
- MaleFemale
- MeanQuality
- MultiAllelicProportion
- NumberOfCsqPerGene
- NumberOfLinesFromTabix
- PrivateAndShared
- PrivateVSPanel
- QCParametersDistribution
- SampleStats
- SharedAlleleMatrix
- VQSLod
- Formatting Functions
- Other Functions
- Graphics
- Filters
- Position Filters
- Sample Filters
- Genotype Filters
- Variant Frequency Filters
- min-maf
- max-maf
- min-group-maf
- max-group-maf
- min-ref-af
- max-ref-af
- min-group-ref-af
- max-group-ref-af
- min-all-non-ref-af
- max-all-non-ref-af
- min-group-all-non-ref-af
- max-group-all-non-ref-af
- min-any-non-ref-af
- max-any-non-ref-af
- min-group-any-non-ref-af
- max-group-any-non-ref-af
- min-ref-ac
- max-ref-ac
- min-group-ref-ac
- max-group-ref-ac
- min-all-non-ref-ac
- max-all-non-ref-ac
- min-group-all-non-ref-ac
- max-group-all-non-ref-ac
- min-mac
- max-mac
- min-group-mac
- max-group-mac
- min-any-non-ref-ac
- max-any-non-ref-ac
- min-group-any-non-ref-ac
- max-group-any-non-ref-ac
- Variant Property Filters
- keep-id
- remove-id
- keep-ids
- remove-ids
- keep-indels
- remove-indels
- keep-snvs
- remove-snvs
- keep-filtered-all
- keep-filtered-any
- remove-filtered-all
- remove-filtered-any
- strict-keep-filtered-all
- strict-keep-filtered-any
- strict-remove-filtered-all
- strict-remove-filtered-any
- keep-any-info
- keep-all-info
- remove-any-info
- remove-all-info
- min-alleles
- max-alleles
- min-meanDP
- min-medianDP
- max-meanDP
- max-medianDP
- min-meanGQ
- min-medianGQ
- max-meanGQ
- max-medianGQ
- hwe
- remove-hwe
- max-missing
- min-missing
- max-missing-count
- min-missing-count
- phased
- remove-phased
- minQ
- maxQ
- keep-info-value
- remove-info-value
- File Formats
- Download
- Changelog