diff options
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 102 |
1 files changed, 54 insertions, 48 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 4670728c9a..9434c5e16c 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -856,57 +856,63 @@ suite native in R.") (license license:expat)))) (define-public r-bpcells - (let ((commit "32ce67312185d3ed1046b4218dd3aaf1b35dcfda") - (revision "1")) - (package - (name "r-bpcells") - (version (git-version "0.1.0" revision commit)) - (source (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/bnprks/BPCells/") - (commit commit))) - (file-name (git-file-name name version)) - (sha256 - (base32 - "0im4sqvbii326acmd1hnimyzsllnbvnh9al3dp1nla6isgi7s6cg")))) - (properties `((upstream-name . "BPCells"))) - (build-system r-build-system) - (arguments - (list - #:phases - '(modify-phases %standard-phases - (add-after 'unpack 'do-not-tune - (lambda _ - (substitute* "configure" - (("\"-march=native\"") "\"\""))))))) - (inputs (list hdf5 zlib)) - (propagated-inputs (list r-dplyr - r-ggplot2 - r-ggrepel - r-hexbin - r-magrittr - r-matrix - r-patchwork - r-rcolorbrewer - r-rcpp - r-rcppeigen - r-rlang - r-scales - r-scattermore - r-stringr - r-tibble - r-tidyr - r-vctrs)) - (native-inputs (list pkg-config)) - (home-page "https://github.com/bnprks/BPCells/") - (synopsis "Single cell counts matrices to PCA") - (description - "This is a package providing efficient operations for single cell + (package + (name "r-bpcells") + (version "0.3.0") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/bnprks/BPCells") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 "12h1di45fg06nhsliii7v0h1z567pkpis1xm4ar1qr8ns1n8iljw")))) + (properties `((upstream-name . "BPCells"))) + (build-system r-build-system) + (arguments + (list + #:phases + '(modify-phases %standard-phases + (add-after 'unpack 'chdir + (lambda _ (chdir "r")))))) + (propagated-inputs + (list r-dplyr + r-ggplot2 + r-ggrepel + r-hexbin + r-lifecycle + r-magrittr + r-matrix + r-patchwork + r-rcolorbrewer + r-rcpp + r-rcppeigen + r-readr + r-rlang + r-scales + r-scattermore + r-stringr + r-tibble + r-tidyr + r-vctrs + + ;; Suggested packages + r-genomicranges + r-igraph + r-iranges + r-matrixstats)) + (inputs (list hdf5 zlib)) + (native-inputs (list pkg-config)) + (home-page "https://github.com/bnprks/BPCells") + (synopsis "Single cell counts matrices to PCA") + (description + "This is a package providing efficient operations for single cell ATAC-seq fragments and RNA counts matrices. It is interoperable with standard file formats, and introduces efficient bit-packed formats that allow large storage savings and increased read speeds.") - (license license:gpl3)))) + ;; Either license + (license (list license:asl2.0 license:expat)))) (define-public r-btools (let ((commit "fa21d4ca01d37ea4d98b45582453f3bf95cbc2b5") |