关于Trimmomatic

标题：Trimmomatic: A flexible trimmer for Illumina Sequence Data

Trimmomatic as a more flexible and efficient pre-processing tool, which could correctly handle paired-end data.

下载地址：http://www.usadellab.org/cms/index.php?page=trimmomatic

Version 0.33

该软件的两种模式：单端和双端模式。There are two major modes of the program: Paired end mode and Single end mode. The paired end mode will maintain correspondence of read pairs and also use the additional information contained in paired reads to better find adapter or PCR primer fragments introduced by the library preparation process.

输入文件要求为fastq文件，支持压缩文件。Trimmomatic works with FASTQ files (using phred + 33 or phred + 64 quality scores, depending on the Illumina pipeline used). Files compressed using either „gzip‟ or „bzip2‟ are supported, and are identified by use of .gz‟ or .bz2‟ file extensions.