1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
|
# Copyright 2013-2018 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 import *
class REdger(RPackage):
"""Differential expression analysis of RNA-seq expression profiles with
biological replication. Implements a range of statistical methodology
based on the negative binomial distributions, including empirical Bayes
estimation, exact tests, generalized linear models and quasi-likelihood
tests. As well as RNA-seq, it be applied to differential signal analysis
of other types of genomic data that produce counts, including ChIP-seq,
SAGE and CAGE."""
homepage = "https://bioconductor.org/packages/edgeR/"
git = "https://git.bioconductor.org/packages/edgeR.git"
version('3.22.3', commit='e82e54afc9398ac54dc4caba0f7ae5c43e572203')
version('3.18.1', commit='101106f3fdd9e2c45d4a670c88f64c12e97a0495')
depends_on('r-limma', type=('build', 'run'))
depends_on('r-locfit', type=('build', 'run'))
depends_on('r-rcpp', type=('build', 'link', 'run'))
depends_on('r@3.5.0:3.5.9', when='@3.22.3')
depends_on('r@3.4.0:3.4.9', when='@3.18.1')
|
