45 lines
2.0 KiB
Python
45 lines
2.0 KiB
Python
# Copyright 2013-2022 Lawrence Livermore National Security, LLC and other
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# Spack Project Developers. See the top-level COPYRIGHT file for details.
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#
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# SPDX-License-Identifier: (Apache-2.0 OR MIT)
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from spack.package import *
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class RDexseq(RPackage):
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"""Inference of differential exon usage in RNA-Seq.
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The package is focused on finding differential exon usage using RNA-seq
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exon counts between samples with different experimental designs. It
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provides functions that allows the user to make the necessary
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statistical tests based on a model that uses the negative binomial
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distribution to estimate the variance between biological replicates
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and generalized linear models for testing. The package also provides
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functions for the visualization and exploration of the results."""
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bioc = "DEXSeq"
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maintainers = ["dorton21"]
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version("1.42.0", commit="d91de62a27d0cab2ef12ef1a5f23dc2f7a0cfadd")
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version("1.40.0", commit="7d2d639b3a157e443058fc557132cd2629bb36f3")
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version("1.36.0", commit="f0a361af6954fcc2abb2db801c26e303570669b2")
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depends_on("r-biocparallel", type=("build", "run"))
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depends_on("r-biobase", type=("build", "run"))
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depends_on("r-summarizedexperiment", type=("build", "run"))
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depends_on("r-iranges@2.5.17:", type=("build", "run"))
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depends_on("r-genomicranges@1.23.7:", type=("build", "run"))
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depends_on("r-deseq2@1.9.11:", type=("build", "run"))
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depends_on("r-annotationdbi", type=("build", "run"))
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depends_on("r-rcolorbrewer", type=("build", "run"))
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depends_on("r-s4vectors@0.23.18:", type=("build", "run"))
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depends_on("r-biocgenerics", type=("build", "run"))
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depends_on("r-biomart", type=("build", "run"))
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depends_on("r-hwriter", type=("build", "run"))
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depends_on("r-stringr", type=("build", "run"))
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depends_on("r-rsamtools", type=("build", "run"))
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depends_on("r-statmod", type=("build", "run"))
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depends_on("r-geneplotter", type=("build", "run"))
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depends_on("r-genefilter", type=("build", "run"))
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