diff options
Diffstat (limited to 'var')
| -rw-r--r-- | var/spack/repos/builtin/packages/bioconductor-tximeta/package.py | 39 |
1 files changed, 39 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/bioconductor-tximeta/package.py b/var/spack/repos/builtin/packages/bioconductor-tximeta/package.py new file mode 100644 index 0000000000..fd1206a2c0 --- /dev/null +++ b/var/spack/repos/builtin/packages/bioconductor-tximeta/package.py @@ -0,0 +1,39 @@ +# 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 BioconductorTximeta(RPackage): + """Transcript Quantification Import with Automatic Metadata + + Transcript quantification import from Salmon and alevin with automatic + attachment of transcript ranges and release information, and other associated + metadata. De novo transcriptomes can be linked to the appropriate sources with + linkedTxomes and shared for computational reproducibility.""" + + homepage = "https://bioconductor.org/packages/release/bioc/html/tximeta.html" + url = "https://bioconductor.org/packages/release/bioc/src/contrib/tximeta_1.18.1.tar.gz" + + bioc = "tximeta" + + version("1.18.1", sha256="ee486fc4b2352e2998a3c0c2064449ebcf09b5815f982597ea58311dc8064408") + + depends_on("r", type=("build", "run")) + depends_on("r-annotationdbi") + depends_on("r-annotationhub") + depends_on("r-biocfilecache") + depends_on("r-biostrings") + depends_on("r-ensembldb") + depends_on("r-genomeinfodb") + depends_on("r-genomicfeatures") + depends_on("r-genomicranges") + depends_on("r-iranges") + depends_on("r-s4vectors") + depends_on("r-summarizedexperiment") + depends_on("r-tximport") + depends_on("r-jsonlite") + depends_on("r-matrix") + depends_on("r-tibble") |