Source: qcumber
Standards-Version: 4.7.4
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders:
 Andreas Tille <tille@debian.org>,
Section: science
Build-Depends:
 debhelper-compat (= 14),
 bowtie2,
 dh-sequence-python3,
 fastqc,
 kraken,
 python3-all,
 python3-setuptools,
 texlive-latex-base,
 trimmomatic,
Vcs-Browser: https://salsa.debian.org/med-team/qcumber
Vcs-Git: https://salsa.debian.org/med-team/qcumber.git
Homepage: https://gitlab.com/RKIBioinformaticsPipelines/QCumber

Package: qcumber
Architecture: all
Depends:
 libjs-angularjs,
 libjs-bootstrap,
 libjs-d3,
 libjs-jquery,
 python3-biopython,
 python3-jinja2,
 python3-matplotlib,
 r-base-core,
 r-bioc-savr,
 r-cran-ggplot2,
 r-cran-quantreg,
 snakemake,
 ${misc:Depends},
 ${python3:Depends},
Recommends:
 dwgsim,
 kraken,
Conflicts:
 qc-pipeline,
Provides:
 qc-pipeline,
Replaces:
 qc-pipeline,
Description: quality control of genomic sequences
 QCPipeline is a tool for quality control. The workflow is as follows:
 .
  1. Quality control with FastQC
  2. Trim Reads with Trimmomatic
  3. Quality control of trimmed reads with FastQC
  4. Map reads against reference using bowtie2
  5. Classify reads with Kraken