SCF (biojava-legacy 1.9.5 API)

Fields
Modifier and Type	Field	Description
`static int`	`BYTE_MAX_VALUE`	Represents the maximum unsigned value of a byte for wrapping purposes
`static String`	`PROB_NUC_A`	Base call alignment sequence label for the probability that call should be A.
`static String`	`PROB_NUC_C`	Base call alignment sequence label for the probability that call should be C.
`static String`	`PROB_NUC_G`	Base call alignment sequence label for the probability that call should be G.
`static String`	`PROB_NUC_T`	Base call alignment sequence label for the probability that call should be T.
`static Object`	`PROB_OVERCALL`	Base call alignment sequence label for the overcall probability.
`static Object`	`PROB_SUBSTITUTION`	Base call alignment sequence label for the substitution probability.
`static Object`	`PROB_UNDERCALL`	Base call alignment sequence label for the undercall probability.
`static int`	`SHORT_MAX_VALUE`	Represents the maximum unsigned value of a short for wrapping purposes

Fields inherited from interface org.biojava.bio.chromatogram.Chromatogram
DNA, OFFSETS

Constructors
Modifier	Constructor	Description
`protected`	`SCF()`	Creates a new, completely empty SCF.

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`static SCF`	`create(File f)`
`static SCF`	`create(InputStream in, long alreadyRead)`
`Properties`	`getComments()`	Returns the comments fields as a `Properties` mapping.
`static IntegerAlphabet.SubIntegerAlphabet`	`getProbabilityAlphabet()`
`protected void`	`load(File f)`
`protected void`	`load(InputStream in, long initOffset)`
`protected SymbolList`	`reverseComplementBaseCallList(String label)`	Overrides `AbstractChromatogram.reverseComplementBaseCallList(java.lang.Object)` to support the 7 quality values from the SCF.
`protected AbstractChromatogram`	`reverseComplementInstance()`	Returns a new instance of this AbstractChromatogram subclass for use in `AbstractChromatogram.reverseComplement()`.