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Source: trinityrnaseq
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Michael R. Crusoe <crusoe@ucdavis.edu>
Section: science
Priority: optional
Build-Depends: debhelper (>= 9),
autotools-dev,
dh-autoreconf,
automake1.11,
jellyfish (>= 2.1.4),
libjung-free-java,
javahelper,
libgetopt-java,
default-jdk,
parafly,
libjs-jquery,
jaligner,
libhts-dev
Standards-Version: 3.9.8
Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/trinityrnaseq.git
Vcs-Git: https://anonscm.debian.org/git/debian-med/trinityrnaseq.git
Homepage: http://trinityrnaseq.github.io/
Package: trinityrnaseq
Architecture: any
Depends: ${shlibs:Depends},
${misc:Depends},
${perl:Depends},
${java:Depends},
bowtie,
bowtie2,
python,
libwww-perl,
default-jre-headless,
samtools,
jellyfish,
r-base-core,
r-cran-cluster,
r-bioc-edger,
r-bioc-qvalue,
rsem,
berkeley-express,
trimmomatic,
transdecoder,
parafly,
curl
Recommends: ${java:Recommends},
trinityrnaseq-examples
Suggests: collectl
Description: RNA-Seq De novo Assembly
Trinity represents a novel method for the efficient and robust de novo
reconstruction of transcriptomes from RNA-seq data. Trinity combines three
independent software modules: Inchworm, Chrysalis, and Butterfly, applied
sequentially to process large volumes of RNA-seq reads. Trinity partitions
the sequence data into many individual de Bruijn graphs, each representing the
transcriptional complexity at a given gene or locus, and then processes
each graph independently to extract full-length splicing isoforms and to tease
apart transcripts derived from paralogous genes.
Package: trinityrnaseq-examples
Architecture: all
Depends: ${perl:Depends},
${java:Depends},
${misc:Depends},
r-base-core
Recommends: trinityrnaseq
Description: RNA-Seq De novo Assembly common example and testing files
Trinity represents a novel method for the efficient and robust de novo
reconstruction of transcriptomes from RNA-seq data. Trinity combines three
independent software modules: Inchworm, Chrysalis, and Butterfly, applied
sequentially to process large volumes of RNA-seq reads. Trinity partitions
the sequence data into many individual de Bruijn graphs, each representing the
transcriptional complexity at a given gene or locus, and then processes
each graph independently to extract full-length splicing isoforms and to tease
apart transcripts derived from paralogous genes.
.
This package contains testing & example files.
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