diff options
| author | Glenn Johnson <glenn-johnson@uiowa.edu> | 2020-02-13 19:51:18 -0600 |
|---|---|---|
| committer | GitHub <noreply@github.com> | 2020-02-13 19:51:18 -0600 |
| commit | 580c8f5b7eacb0a05f4b68fc4d86b14b7750a507 (patch) | |
| tree | b6d6a96e8d41c58e5511737cf8b6435efcbf64a1 | |
| parent | 46ae3f0570f3ad19fc559d6fa464e701c29bd2f5 (diff) | |
| download | spack-580c8f5b7eacb0a05f4b68fc4d86b14b7750a507.tar.gz spack-580c8f5b7eacb0a05f4b68fc4d86b14b7750a507.tar.bz2 spack-580c8f5b7eacb0a05f4b68fc4d86b14b7750a507.tar.xz spack-580c8f5b7eacb0a05f4b68fc4d86b14b7750a507.zip | |
New package: r-exomecopy (#14885)
| -rw-r--r-- | var/spack/repos/builtin/packages/r-exomecopy/package.py | 24 |
1 files changed, 24 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/r-exomecopy/package.py b/var/spack/repos/builtin/packages/r-exomecopy/package.py new file mode 100644 index 0000000000..dbdcba29cd --- /dev/null +++ b/var/spack/repos/builtin/packages/r-exomecopy/package.py @@ -0,0 +1,24 @@ +# Copyright 2013-2020 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 RExomecopy(RPackage): + """Detection of copy number variants (CNV) from exome sequencing samples, + including unpaired samples. The package implements a hidden Markov model + which uses positional covariates, such as background read depth and + GC-content, to simultaneously normalize and segment the samples into + regions of constant copy count.""" + + homepage = "http://www.bioconductor.org/packages/release/bioc/html/exomeCopy.html" + git = "https://git.bioconductor.org/packages/exomeCopy" + + version('1.32.0', commit='c9a884427d91b6d62ddc16a939bd808e389d3ea6') + + depends_on('r-iranges@2.5.27:', type=('build', 'run')) + depends_on('r-genomicranges@1.23.16:', type=('build', 'run')) + depends_on('r-rsamtools', type=('build', 'run')) + depends_on('r-genomeinfodb', type=('build', 'run')) |