diff options
Diffstat (limited to 'var/spack/repos/builtin/packages/r-sseq/package.py')
| -rw-r--r-- | var/spack/repos/builtin/packages/r-sseq/package.py | 25 |
1 files changed, 20 insertions, 5 deletions
diff --git a/var/spack/repos/builtin/packages/r-sseq/package.py b/var/spack/repos/builtin/packages/r-sseq/package.py index fb36786018..324cdb31f8 100644 --- a/var/spack/repos/builtin/packages/r-sseq/package.py +++ b/var/spack/repos/builtin/packages/r-sseq/package.py @@ -7,13 +7,28 @@ from spack import * class RSseq(RPackage): - """Shrinkage estimation of dispersion in Negative Binomial models for - RNA-seq experiments with small sample size""" + """Shrinkage estimation of dispersion in Negative Binomial models for RNA- + seq experiments with small sample size. - homepage = "https://www.bioconductor.org/packages/sSeq/" - url = "https://www.bioconductor.org/packages/release/bioc/src/contrib/sSeq_1.20.0.tar.gz" + The purpose of this package is to discover the genes that are + differentially expressed between two conditions in RNA-seq experiments. + Gene expression is measured in counts of transcripts and modeled with + the Negative Binomial (NB) distribution using a shrinkage approach for + dispersion estimation. The method of moment (MM) estimates for + dispersion are shrunk towards an estimated target, which minimizes the + average squared difference between the shrinkage estimates and the + initial estimates. The exact per-gene probability under the NB model is + calculated, and used to test the hypothesis that the expected expression + of a gene in two conditions identically follow a NB distribution.""" - version('1.20.0', sha256='0fddcb238a6c401987843debe5b46dc03c22a1ee04df670f0d502e86a4f2144f') + homepage = "https://bioconductor.org/packages/sSeq" + git = "https://git.bioconductor.org/packages/sSeq.git" + + version('1.22.0', commit='fa3895c9578edddca17b5d13a2678ee5830b85cc') + version('1.20.1', commit='91f31440323612cb04beb44404ab0a1bcb3ad87d') + version('1.18.0', commit='1f65e5a55ce0d51672b785450031872e6db5ca0f') + version('1.16.0', commit='b7f2b99dbd4a12ee9d18b0ec9898f13f1038479e') + version('1.14.0', commit='20ccffeb60196914975aa1feef902ddba659c571') depends_on('r@3.0:', type=('build', 'run')) depends_on('r-catools', type=('build', 'run')) |