Constant Field Values

Contents

• datastructure.*
• main.*
• utility.*

datastructure.*

datastructure.Attributable

Modifier and Type	Constant Field	Value
public static final String	sampleOccurrence	"sample"

main.*

main.Musial

Modifier and Type	Constant Field	Value
public static final String	storageExtension	".json.gz"

utility.*

utility.Constants

Modifier and Type	Constant Field	Value
public static final String	$Allele_proteoform	"proteoform"
public static final String	$Attributable_frequencyDisrupted	"frequency_disrupted"
public static final String	$Attributable_frequencyReference	"frequency_reference"
public static final String	$Contig_length	"length"
public static final String	$Feature_children	"children"
public static final String	$Feature_numberOfAlleles	"no_allele"
public static final String	$Feature_numberOfProteoforms	"no_proteoform"
public static final String	$Sample_meanCoverage	"mean_coverage"
public static final String	$Sample_meanQuality	"mean_quality"
public static final String	$Sample_numberOfCalls	"no_call"
public static final String	$Sample_numberOfFiltered	"no_call_filter"
public static final String	$Sample_numberOfIndels	"no_variant_indel"
public static final String	$Sample_numberOfSubstitutions	"no_variant_substitution"
public static final String	$SequenceType_clusterIndex	"cluster_index"
public static final String	$SequenceType_clusterLabel	"cluster_label"
public static final String	$SequenceType_clusterOutlierScore	"cluster_outlier_score"
public static final String	$SequenceType_effects	"so_effects"
public static final String	$SequenceType_frequency	"allelic_frequency"
public static final String	$SequenceType_sequenceLengthVariation	"sequence_length_deviation"
public static final String	$VariantInformation_frequency	"variant_frequency"
public static final String	anyNucleotide	"N"
public static final String	baseSymbols	"ARNDCQEGHILKMFPSTWYVBJZX*"
public static final String	COLON	":"
public static final String	COMMA	","
public static final String	DOT	"."
public static final String	EMPTY	""
public static final String	EQUAL	"="
public static final char	gapChar	'-'
public static final String	gapString	"-"
public static final String	lowCoverageCallPrefix	"x"
public static final String	lowFrequencyCallPrefix	"f"
public static final String	PIPE	"|"
public static final String	SEMICOLON	";"
public static final String	SIGN	"#"
public static final String	snpEffAttributeKeyPrefix	"snpeff_"
public static final String	stopCodon	"*"
public static final String	synonymous	"synonymous"
public static final String	TAB	"\t"