From 1afbf72037f8e76a10f609c41c758f54940fa74a Mon Sep 17 00:00:00 2001 From: pabloaledo <112545720+pabloaledo@users.noreply.github.com> Date: Wed, 14 Jun 2023 21:40:57 +0200 Subject: add bioconductor-ebseq (#38380) * add buiconductor-ebseq Signed-off-by: Pablo --------- Signed-off-by: Pablo --- .../builtin/packages/bioconductor-ebseq/package.py | 29 ++++++++++++++++++++++ 1 file changed, 29 insertions(+) create mode 100644 var/spack/repos/builtin/packages/bioconductor-ebseq/package.py diff --git a/var/spack/repos/builtin/packages/bioconductor-ebseq/package.py b/var/spack/repos/builtin/packages/bioconductor-ebseq/package.py new file mode 100644 index 0000000000..b27636dd16 --- /dev/null +++ b/var/spack/repos/builtin/packages/bioconductor-ebseq/package.py @@ -0,0 +1,29 @@ +# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other +# Spack Project Developers. See the top-level COPYRIGHT file for details. +# +# SPDX-License-Identifier: (Apache-2.0 OR MIT) + +from spack.package import * + + +class BioconductorEbseq(RPackage): + """An R package for gene and isoform differential expression analysis of RNA-seq data. + + R/EBSeq is an R package for identifying genes and isoforms differentially + expressed (DE) across two or more biological conditions in an RNA-seq + experiment. Details can be found in Leng et al., 2013. It provides the syntax + required for identifying DE genes and isoforms in a two-group RNA-seq + experiment as well for identifying DE genes across more than two conditions + (the commands for identifying DE isoforms across more than two conditions + are the same as those required for gene-level analysis).""" + + homepage = "https://www.biostat.wisc.edu/~kendzior/EBSEQ/" + url = "https://bioconductor.org/packages/release/bioc/src/contrib/EBSeq_1.40.0.tar.gz" + + bioc = "ebseq" + + version("1.40.0", sha256="a5d3a88743d61062c6d68a426b19c53a4afd2fa216abc884d42c187780994378") + + depends_on("r-blockmodeling") + depends_on("r-gplots") + depends_on("r-testthat") -- cgit v1.2.3-70-g09d2