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envelope-from=MadalinIonel.Patrascu@mdc-berlin.de; helo=a2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001, T_SCC_BODY_TEXT_LINE=-0.01 autolearn=ham autolearn_force=no X-Spam_action: no action X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: "Guix-patches" X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioconductor.scm (r-tricycle): New variable. --- gnu/packages/bioconductor.scm | 37 +++++++++++++++++++++++++++++++++++ 1 file changed, 37 insertions(+) diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index ce1e23f0bf..e6555c93df 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -775,6 +775,43 @@ (define-public r-ensdb-mmusculus-v79 Ensembl.") (license license:artistic2.0))) +(define-public r-tricycle + (package + (name "r-tricycle") + (version "1.2.1") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "tricycle" version)) + (sha256 + (base32 + "19yh7yif8630j845m9rddva2z0xy4jcw9j4hvyr076jqbyxz998r")))) + (properties `((upstream-name . "tricycle"))) + (build-system r-build-system) + (propagated-inputs (list r-annotationdbi + r-circular + r-dplyr + r-genomicranges + r-ggplot2 + r-iranges + r-rcolorbrewer + r-s4vectors + r-scater + r-scattermore + r-singlecellexperiment + r-summarizedexperiment)) + (native-inputs (list r-knitr)) + (home-page "https://github.com/hansenlab/tricycle") + (synopsis "Transferable representation and inference of cell cycle") + (description + "The package contains functions to infer and visualize cell cycle process +using Single-cell RNA-Seq data. It exploits the idea of transfer learning, +projecting new data to the previous learned biologically interpretable space. +The @code{tricycle} provides a pre-learned cell cycle space, which could be +used to infer cell cycle time of human and mouse single cell samples. In +addition, it also offer functions to visualize cell cycle time on different +embeddings and functions to build new reference.") + (license license:gpl3))) + (define-public r-txdb-dmelanogaster-ucsc-dm6-ensgene (package (name "r-txdb-dmelanogaster-ucsc-dm6-ensgene")