Reading a VCF file faster with java 8, htsjdk and java.util.stream.Stream

java 8 streams "support functional-style operations on streams of elements, such as map-reduce transformations on collections". In this post, I will show how I've implemented a java.util.stream.Stream of VCF variants that counts the number of items in dbsnp.This example uses the java htsjdk API for reading variants.When using parallel streams, the main idea is to implement a java.util.Spliterator

Source: YOKOFAKUN - March 3, 2016 Category: Bioinformatics Authors: Pierre Lindenbaum Source Type: blogs