diff options
Diffstat (limited to 'gnu/packages/bioconductor.scm')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 57 |
1 files changed, 49 insertions, 8 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index b3bd174764..a85cf904f7 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -7128,14 +7128,14 @@ information about samples and features can be added to the plot.") (define-public r-gosemsim (package (name "r-gosemsim") - (version "2.18.0") + (version "2.18.1") (source (origin (method url-fetch) (uri (bioconductor-uri "GOSemSim" version)) (sha256 (base32 - "1fzmaxjzyvq6xj5ny1sjijdwi4krzjgyaz52fczpwrxijq5pnyn1")))) + "00dbgkiv9x7g2i0anzcxpycwqqqry0y7jl3ad93lhvi31qnqq1sm")))) (properties `((upstream-name . "GOSemSim"))) (build-system r-build-system) (propagated-inputs @@ -9932,14 +9932,14 @@ self-organizing map clustering and minimal spanning trees.") (define-public r-mixomics (package (name "r-mixomics") - (version "6.16.2") + (version "6.16.3") (source (origin (method url-fetch) (uri (bioconductor-uri "mixOmics" version)) (sha256 (base32 - "0kbljjwm5caf2znqnkhrbmcfsv1mhppp9h491210q477y8bjlkja")))) + "1x6dbw4q6p9vngm256fr96r9fjxk5nik5ivkhbl5a9zqyq8wagpa")))) (properties `((upstream-name . "mixOmics"))) (build-system r-build-system) (propagated-inputs @@ -10319,14 +10319,14 @@ regulatory networks from expression data.") (define-public r-roc (package (name "r-roc") - (version "1.68.0") + (version "1.68.1") (source (origin (method url-fetch) (uri (bioconductor-uri "ROC" version)) (sha256 (base32 - "0ff5rcpyybgjzsfbhaslim0m02n3bksv1r9v7bq0gg0iyzll0rjc")))) + "1rmsrvn6hrg9ay7xfb05mfkxknnig78p3kbk9ghsd11lhx2fjm3s")))) (properties `((upstream-name . "ROC"))) (build-system r-build-system) (propagated-inputs @@ -13386,14 +13386,14 @@ functionalities including parsing, graph operation, visualization and etc.") (define-public r-ldblock (package (name "r-ldblock") - (version "1.22.0") + (version "1.22.1") (source (origin (method url-fetch) (uri (bioconductor-uri "ldblock" version)) (sha256 (base32 - "075jncvfbn3lydg0jvfhnv5025mnw79saa0k557vpcwdvs9y4p0c")))) + "16vp5psmigxdkkd6fbivb6s8mvd7rsnm771wsbjvayl2y7ig7kq4")))) (build-system r-build-system) (propagated-inputs `(("r-biocgenerics" ,r-biocgenerics) @@ -13661,3 +13661,44 @@ starting site, start codon, stop codon and transcription ending site.") "This package provides flexible, quantitative, and integrative genomic visualizations for publication-quality multi-panel figures.") (license license:gpl2+))) + +(define-public r-tximeta + (package + (name "r-tximeta") + (version "1.10.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "tximeta" version)) + (sha256 + (base32 + "0ipgpcl93cac4qff6lp9x2l3gav5kb1x1d56g32h09hlm797rvvh")))) + (properties `((upstream-name . "tximeta"))) + (build-system r-build-system) + (propagated-inputs + `(("r-annotationdbi" ,r-annotationdbi) + ("r-annotationhub" ,r-annotationhub) + ("r-biocfilecache" ,r-biocfilecache) + ("r-biostrings" ,r-biostrings) + ("r-ensembldb" ,r-ensembldb) + ("r-genomeinfodb" ,r-genomeinfodb) + ("r-genomicfeatures" ,r-genomicfeatures) + ("r-genomicranges" ,r-genomicranges) + ("r-iranges" ,r-iranges) + ("r-jsonlite" ,r-jsonlite) + ("r-matrix" ,r-matrix) + ("r-s4vectors" ,r-s4vectors) + ("r-summarizedexperiment" ,r-summarizedexperiment) + ("r-tibble" ,r-tibble) + ("r-tximport" ,r-tximport))) + (native-inputs + `(("r-knitr" ,r-knitr))) + (home-page "https://github.com/mikelove/tximeta") + (synopsis "Transcript quantification import with automatic metadata") + (description + "This package implements transcript quantification import from Salmon and +alevin with automatic attachment of transcript ranges and release information, +and other associated metadata. De novo transcriptomes can be linked to the +appropriate sources with linkedTxomes and shared for computational +reproducibility.") + (license license:gpl2))) |