New R package vcfr (#22495)

1 files changed, 39 insertions, 0 deletions

diff --git a/var/spack/repos/builtin/packages/r-vcfr/package.py b/var/spack/repos/builtin/packages/r-vcfr/package.py
new file mode 100644
index 0000000000..9d1c10694d
--- /dev/null
+++ b/var/spack/repos/builtin/packages/r-vcfr/package.py
@@ -0,0 +1,39 @@
+# Copyright 2013-2021 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 RVcfr(RPackage):
+    """Manipulate and Visualize VCF Data
+
+    Facilitates easy manipulation of variant call format (VCF) data. Functions
+    are provided to rapidly read from and write to VCF files. Once VCF data is
+    read into R a parser function extracts matrices of data. This information
+    can then be used for quality control or other purposes. Additional
+    functions provide visualization of genomic data. Once processing is
+    complete data may be written to a VCF file (*.vcf.gz). It also may be
+    converted into other popular R objects (e.g., genlight, DNAbin). VcfR
+    provides a link between VCF data and familiar R software."""
+
+    homepage = "https://github.com/knausb/vcfR"
+    cran     = "vcfR"
+
+    maintainers = ['dorton21']
+
+    version('1.12.0', sha256='dd87ff010365de363864a44ca49887c0fdad0dd18d0d9c66e44e39c2d4581d52')
+
+    depends_on('r@3.0.1:', type=('build', 'run'))
+    depends_on('r-ape', type=('build', 'run'))
+    depends_on('r-dplyr', type=('build', 'run'))
+    depends_on('r-magrittr', type=('build', 'run'))
+    depends_on('r-memuse', type=('build', 'run'))
+    depends_on('r-pinfsc50', type=('build', 'run'))
+    depends_on('r-rcpp', type=('build', 'run'))
+    depends_on('r-stringr', type=('build', 'run'))
+    depends_on('r-tibble', type=('build', 'run'))
+    depends_on('r-vegan', type=('build', 'run'))
+    depends_on('r-viridislite', type=('build', 'run'))
+    depends_on('zlib')