Package org.snpeff.svg
Class SvgTranslocation
java.lang.Object
org.snpeff.svg.Svg
org.snpeff.svg.SvgTranslocation
Create an SVG representation of a BND (translocation) variant
In a VCF file, there are four possible translocations (BND) entries:
REF ALT Meaning
type 1: s t[p[ piece extending to the right of p is joined after t
type 2: s t]p] reverse comp piece extending left of p is joined after t
type 3: s ]p]t piece extending to the left of p is joined before t
type 4: s [p[t reverse comp piece extending right of p is joined before t
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Field Summary
Fields inherited from class org.snpeff.svg.Svg
debug, DEFAULT_BASE_Y, DEFAULT_SIZE_X, DEFAULT_SIZE_Y, LINE_COLOR_STROKE, LINE_STROKE_WIDTH, RECT_COLOR_FILL, RECT_COLOR_STROKE, RECT_HEIGHT, RECT_STROKE_WIDTH, TEXT_SIZE, TEXT_STYLE
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Constructor Summary
ConstructorsConstructorDescriptionSvgTranslocation
(Transcript tr1, Transcript tr2, VariantBnd varBnd, SnpEffectPredictor snpEffPredictor) -
Method Summary
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Constructor Details
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SvgTranslocation
public SvgTranslocation(Transcript tr1, Transcript tr2, VariantBnd varBnd, SnpEffectPredictor snpEffPredictor)
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Method Details