A 10x faster version base on official trimmomatic. The results of trimmomatic-pigz are exactly the same with official trimmomatic.(md5sum with decompression fastq)
Download: https://github.com/jaydenSen/Trimmomatic-pigz/releases/download/v1.0/trimmomatic-pigz.jar
We replaced gzip library with a parallelized version: pigz.
https://github.com/shevek/parallelgzip
This library contains a parallelized GZIP implementation which is a high performance drop-in replacement for the standard java.util.zip classes. It is a pure Java equivalent of the pigz parallel compresssor.
Test in paired end Mode with two fastq.gz(R1/R2):
