Source: trimmomatic
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>,
           Steffen Moeller <moeller@debian.org>
Section: science
Priority: optional
Build-Depends: debhelper (>= 12~),
               default-jdk | openjdk-7-jdk,
               javahelper,
               ant,
               libjbzip2-java
Standards-Version: 4.3.0
Vcs-Browser: https://salsa.debian.org/med-team/trimmomatic
Vcs-Git: https://salsa.debian.org/med-team/trimmomatic.git
Homepage: http://www.usadellab.org/cms/index.php?page=trimmomatic

Package: trimmomatic
Architecture: all
Depends: ${shlibs:Depends},
         ${misc:Depends},
         libjbzip2-java,
         default-jre
Description: flexible read trimming tool for Illumina NGS data
 Trimmomatic performs a variety of useful trimming tasks for illumina
 paired-end and single ended data.The selection of trimming steps and
 their associated parameters are supplied on the command line.
 .
 The current trimming steps are:
  * ILLUMINACLIP: Cut adapter and other illumina-specific sequences from
    the read.
  * SLIDINGWINDOW: Perform a sliding window trimming, cutting once thes
    average quality within the window falls below a threshold.
  * LEADING: Cut bases off the start of a read, if below a threshold quality
  * TRAILING: Cut bases off the end of a read, if below a threshold quality
  * CROP: Cut the read to a specified length
  * HEADCROP: Cut the specified number of bases from the start of the read
  * MINLENGTH: Drop the read if it is below a specified length
  * TOPHRED33: Convert quality scores to Phred-33
  * TOPHRED64: Convert quality scores to Phred-64
 It works with FASTQ (using phred + 33 or phred + 64 quality scores,
 depending on the Illumina pipeline used), either uncompressed or
 gzipp'ed FASTQ. Use of gzip format is determined based on the .gz
 extension.
