From: zimoun <zimon.toutoune@gmail.com>
To: 43345@debbugs.gnu.org
Cc: zimoun <zimon.toutoune@gmail.com>
Subject: [bug#43345] [PATCH 09/12] gnu: r-seurat: Move to (gnu packages cran).
Date: Fri, 11 Sep 2020 20:08:46 +0200 [thread overview]
Message-ID: <20200911180849.12582-9-zimon.toutoune@gmail.com> (raw)
In-Reply-To: <20200911180849.12582-1-zimon.toutoune@gmail.com>
* gnu/packages/bioinformatics.scm (r-seurat): Move from here ...
* gnu/packages/cran.scm (r-seurat): ... to here.
---
gnu/packages/bioinformatics.scm | 65 ---------------------------------
gnu/packages/cran.scm | 65 +++++++++++++++++++++++++++++++++
2 files changed, 65 insertions(+), 65 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index fecb3c072d..a6505099fc 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -9735,71 +9735,6 @@ contains a number of utilities to explore the MS/MS results and assess missed
and irregular enzymatic cleavages, mass measurement accuracy, etc.")
(license license:artistic2.0)))
-(define-public r-seurat
- (package
- (name "r-seurat")
- (version "3.2.0")
- (source (origin
- (method url-fetch)
- (uri (cran-uri "Seurat" version))
- (sha256
- (base32
- "1vj3dlsqakgnn4x1jz9fkl2cy0jzc5s65h1c20fnamr7lk45pnf2"))))
- (properties `((upstream-name . "Seurat")))
- (build-system r-build-system)
- (propagated-inputs
- `(("r-ape" ,r-ape)
- ("r-cluster" ,r-cluster)
- ("r-cowplot" ,r-cowplot)
- ("r-fitdistrplus" ,r-fitdistrplus)
- ("r-future" ,r-future)
- ("r-future-apply" ,r-future-apply)
- ("r-ggplot2" ,r-ggplot2)
- ("r-ggrepel" ,r-ggrepel)
- ("r-ggridges" ,r-ggridges)
- ("r-httr" ,r-httr)
- ("r-ica" ,r-ica)
- ("r-igraph" ,r-igraph)
- ("r-irlba" ,r-irlba)
- ("r-jsonlite" ,r-jsonlite)
- ("r-kernsmooth" ,r-kernsmooth)
- ("r-leiden" ,r-leiden)
- ("r-lmtest" ,r-lmtest)
- ("r-mass" ,r-mass)
- ("r-matrix" ,r-matrix)
- ("r-miniui" ,r-miniui)
- ("r-patchwork" ,r-patchwork)
- ("r-pbapply" ,r-pbapply)
- ("r-plotly" ,r-plotly)
- ("r-png" ,r-png)
- ("r-rann" ,r-rann)
- ("r-rcolorbrewer" ,r-rcolorbrewer)
- ("r-rcpp" ,r-rcpp)
- ("r-rcppannoy" ,r-rcppannoy)
- ("r-rcppeigen" ,r-rcppeigen)
- ("r-rcppprogress" ,r-rcppprogress)
- ("r-reticulate" ,r-reticulate)
- ("r-rlang" ,r-rlang)
- ("r-rocr" ,r-rocr)
- ("r-rsvd" ,r-rsvd)
- ("r-rtsne" ,r-rtsne)
- ("r-scales" ,r-scales)
- ("r-sctransform" ,r-sctransform)
- ("r-shiny" ,r-shiny)
- ("r-spatstat" ,r-spatstat)
- ("r-tibble" ,r-tibble)
- ("r-uwot" ,r-uwot)))
- (home-page "http://www.satijalab.org/seurat")
- (synopsis "Seurat is an R toolkit for single cell genomics")
- (description
- "This package is an R package designed for QC, analysis, and
-exploration of single cell RNA-seq data. It easily enables widely-used
-analytical techniques, including the identification of highly variable genes,
-dimensionality reduction; PCA, ICA, t-SNE, standard unsupervised clustering
-algorithms; density clustering, hierarchical clustering, k-means, and the
-discovery of differentially expressed genes and markers.")
- (license license:gpl3)))
-
(define-public r-aroma-light
(package
(name "r-aroma-light")
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm
index a6c2518978..8b2a5fc1dc 100644
--- a/gnu/packages/cran.scm
+++ b/gnu/packages/cran.scm
@@ -23802,3 +23802,68 @@ statistics-sensitive non-linear iterative peak-clipping algorithm (SNIP), peak
alignment using warping functions, handling of replicated measurements as well
as allowing spectra with different resolutions.")
(license license:gpl3+)))
+
+(define-public r-seurat
+ (package
+ (name "r-seurat")
+ (version "3.2.0")
+ (source (origin
+ (method url-fetch)
+ (uri (cran-uri "Seurat" version))
+ (sha256
+ (base32
+ "1vj3dlsqakgnn4x1jz9fkl2cy0jzc5s65h1c20fnamr7lk45pnf2"))))
+ (properties `((upstream-name . "Seurat")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-ape" ,r-ape)
+ ("r-cluster" ,r-cluster)
+ ("r-cowplot" ,r-cowplot)
+ ("r-fitdistrplus" ,r-fitdistrplus)
+ ("r-future" ,r-future)
+ ("r-future-apply" ,r-future-apply)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-ggrepel" ,r-ggrepel)
+ ("r-ggridges" ,r-ggridges)
+ ("r-httr" ,r-httr)
+ ("r-ica" ,r-ica)
+ ("r-igraph" ,r-igraph)
+ ("r-irlba" ,r-irlba)
+ ("r-jsonlite" ,r-jsonlite)
+ ("r-kernsmooth" ,r-kernsmooth)
+ ("r-leiden" ,r-leiden)
+ ("r-lmtest" ,r-lmtest)
+ ("r-mass" ,r-mass)
+ ("r-matrix" ,r-matrix)
+ ("r-miniui" ,r-miniui)
+ ("r-patchwork" ,r-patchwork)
+ ("r-pbapply" ,r-pbapply)
+ ("r-plotly" ,r-plotly)
+ ("r-png" ,r-png)
+ ("r-rann" ,r-rann)
+ ("r-rcolorbrewer" ,r-rcolorbrewer)
+ ("r-rcpp" ,r-rcpp)
+ ("r-rcppannoy" ,r-rcppannoy)
+ ("r-rcppeigen" ,r-rcppeigen)
+ ("r-rcppprogress" ,r-rcppprogress)
+ ("r-reticulate" ,r-reticulate)
+ ("r-rlang" ,r-rlang)
+ ("r-rocr" ,r-rocr)
+ ("r-rsvd" ,r-rsvd)
+ ("r-rtsne" ,r-rtsne)
+ ("r-scales" ,r-scales)
+ ("r-sctransform" ,r-sctransform)
+ ("r-shiny" ,r-shiny)
+ ("r-spatstat" ,r-spatstat)
+ ("r-tibble" ,r-tibble)
+ ("r-uwot" ,r-uwot)))
+ (home-page "http://www.satijalab.org/seurat")
+ (synopsis "Seurat is an R toolkit for single cell genomics")
+ (description
+ "This package is an R package designed for QC, analysis, and
+exploration of single cell RNA-seq data. It easily enables widely-used
+analytical techniques, including the identification of highly variable genes,
+dimensionality reduction; PCA, ICA, t-SNE, standard unsupervised clustering
+algorithms; density clustering, hierarchical clustering, k-means, and the
+discovery of differentially expressed genes and markers.")
+ (license license:gpl3)))
--
2.28.0
next prev parent reply other threads:[~2020-09-11 18:10 UTC|newest]
Thread overview: 14+ messages / expand[flat|nested] mbox.gz Atom feed top
2020-09-11 18:05 [bug#43345] [PATCH 00/12] Move some CRAN packages to (gnu packages cran) zimoun
2020-09-11 18:08 ` [bug#43345] [PATCH 01/12] gnu: r-codedepends: Comment why is in bioconductor.scm zimoun
2020-09-11 18:08 ` [bug#43345] [PATCH 02/12] gnu: r-adaptivesparsity: Move to (gnu packages cran) zimoun
2020-09-11 18:08 ` [bug#43345] [PATCH 03/12] gnu: r-diffusionmap: " zimoun
2020-09-11 18:08 ` [bug#43345] [PATCH 04/12] gnu: r-igraph: " zimoun
2020-09-11 18:08 ` [bug#43345] [PATCH 05/12] gnu: r-qtl: " zimoun
2020-09-11 18:08 ` [bug#43345] [PATCH 06/12] gnu: r-qtl2: " zimoun
2020-09-11 18:08 ` [bug#43345] [PATCH 07/12] gnu: r-seqminer: " zimoun
2020-09-11 18:08 ` [bug#43345] [PATCH 08/12] gnu: r-maldiquant: " zimoun
2020-09-11 18:08 ` zimoun [this message]
2020-09-11 18:08 ` [bug#43345] [PATCH 11/12] gnu: r-diversitree: " zimoun
2020-09-11 18:08 ` [bug#43345] [PATCH 12/12] gnu: r-absfiltergsea: " zimoun
2020-09-11 18:08 ` [bug#43345] [PATCH 10/12] gnu: r-phangorn: " zimoun
2020-09-11 20:07 ` bug#43345: [PATCH 00/12] Move some CRAN packages " Ricardo Wurmus
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