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Source: vdjtools
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Steffen Moeller <moeller@debian.org>,
tony mancill <tmancill@debian.org>
Section: non-free/science
XS-Autobuild: no
Priority: optional
Build-Depends: debhelper-compat (= 13),
default-jdk,
gradle,
gradle-debian-helper,
maven-repo-helper
Build-Depends-Indep: groovy,
libcommons-cli-java (>= 1.4),
libcommons-io-java (>= 2.6),
libcommons-lang3-java (>= 3.7),
libgpars-groovy-java (>= 1.2.1),
libmaven-shade-plugin-java (>= 3.1.0),
libmilib-java,
libcommons-math3-java,
libtrove3-java,
junit4
Standards-Version: 4.5.1
Vcs-Browser: https://salsa.debian.org/med-team/vdjtools
Vcs-Git: https://salsa.debian.org/med-team/vdjtools.git
Homepage: https://github.com/mikessh/vdjtools
Rules-Requires-Root: no
Package: libvdjtools-java
Architecture: all
Depends: ${misc:Depends}
Suggests: ${maven:OptionalDepends}
Description: Java library of vdjtools
The VDJtools are interacting with the R statistics environment
to characterize the constitution of the immune repertoire
of B and T cells.
This package provides the Java library.
Package: vdjtools
Architecture: all
Depends: ${misc:Depends},
${java:Depends},
libvdjtools-java,
default-jre | java-runtime
Recommends: r-cran-ape,
r-cran-ggplot2,
r-cran-gplots,
r-cran-mass,
r-cran-plotrix,
r-cran-rcolorbrewer,
r-cran-reshape,
r-cran-reshape2,
r-cran-scales,
r-cran-gridbase,
r-cran-gridextra,
r-cran-circlize,
r-cran-venndiagram,
r-cran-ffield
Description: framework for post-analysis of B/T cell repertoires
VDJtools is an open-source Java/Groovy-based framework designed
to facilitate analysis of immune repertoire sequencing (RepSeq)
data. VDJtools computes a wide set of statistics and is able to perform
various forms of cross-sample analysis. Both comprehensive tabular
output and publication-ready plots are provided.
.
The main aims of the VDJtools Project are:
.
* To ensure consistency between post-analysis methods and results
* To save the time of bioinformaticians analyzing RepSeq data
* To create an API framework facilitating development of new RepSeq
analysis applications
* To provide a simple enough command line tool so it could be used by
immunologists and biologists with little computational background
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