add r-scgps

1 files changed, 63 insertions, 0 deletions

diff --git a/PKGBUILD b/PKGBUILD
new file mode 100644
index 000000000000..d657d71f9a49
--- /dev/null
+++ b/PKGBUILD
@@ -0,0 +1,63 @@
+# system requirements: GNU make
+# Maintainer: Guoyi Zhang <guoyizhang at malacology dot net>
+
+_pkgname=scGPS
+_pkgver=1.10.0
+pkgname=r-${_pkgname,,}
+pkgver=1.10.0
+pkgrel=1
+pkgdesc='A complete analysis of single cell subpopulations, from identifying subpopulations to analysing their relationship (scGPS = single cell Global Predictions of Subpopulation)'
+arch=('x86_64')
+url="https://bioconductor.org/packages/${_pkgname}"
+license=('GPL')
+depends=(
+  r
+  r-caret
+  r-deseq2
+  r-dplyr
+  r-dynamictreecut
+  r-fastcluster
+  r-ggplot2
+  r-glmnet
+  r-locfit
+  r-rcpp
+  r-rcpparmadillo
+  r-rcppparallel
+  r-singlecellexperiment
+  r-summarizedexperiment
+  make
+)
+optdepends=(
+  r-biocparallel
+  r-clusterprofiler
+  r-cowplot
+  r-dendextend
+  r-devtools
+  r-dose
+  r-e1071
+  r-knitr
+  r-matrix
+  r-networkd3
+  r-org.hs.eg.db
+  r-parallel
+  r-rcolorbrewer
+  r-reactomepa
+  r-reshape2
+  r-rmarkdown
+  r-rtsne
+  r-testthat
+  r-wgcna
+  r-xlsx
+)
+source=("https://bioconductor.org/packages/release/bioc/src/contrib/${_pkgname}_${_pkgver}.tar.gz")
+sha256sums=('7f537f1ce15b67dcb9a8eabeb60f36c655158c087d036a8900f4452ffaf1b57c')
+
+build() {
+  R CMD INSTALL ${_pkgname}_${_pkgver}.tar.gz -l "${srcdir}"
+}
+
+package() {
+  install -dm0755 "${pkgdir}/usr/lib/R/library"
+  cp -a --no-preserve=ownership "${_pkgname}" "${pkgdir}/usr/lib/R/library"
+}
+# vim:set ts=2 sw=2 et: