# Package htsjdk.variant.utils

package htsjdk.variant.utils

Classes
Class
Description
BinomialCoefficientUtil
A modified version of the Apache Math implementation of binomial coefficient calculation Derived from code within the CombinatoricsUtils and FastMath classes within Commons Math3 (https://commons.apache.org/proper/commons-math/) Included here for use in Genotype Likelihoods calculation, instead of adding Commons Math3 as a dependency Commons Math3 is licensed using the Apache License 2.0 Full text of this license can be found here: https://www.apache.org/licenses/LICENSE-2.0.txt This product includes software developed at The Apache Software Foundation (http://www.apache.org/).
GeneralUtils
Constants and utility methods used throughout the VCF/BCF/VariantContext classes
SAMSequenceDictionaryExtractor
Small class for loading a SAMSequenceDictionary from a file
VCFHeaderReader
Utility class to read a VCF header without being told beforehand whether the input is VCF or BCF.