{ "_id": "6a1afb131d7bb097a09fca20", "Package": "spacexr", "Type": "Package", "Title": "SpatialeXpressionR: Cell Type Identification in Spatial\nTranscriptomics", "Version": "1.5.0", "Authors@R": "c(\nperson(\"Dylan\", \"Cable\", email = \"dmcable@umich.edu\", role = \"aut\"),\nperson(\n\"Rafael\", \"Irizarry\", email=\"rafael_irizarry@dfci.harvard.edu\",\nrole=\"aut\", comment=c(ORCID=\"0000-0002-3944-4309\")\n),\nperson(\n\"Gabriel\", \"Grajeda\", email = \"gabriel.grajeda@gmail.com\", role = \"cre\",\ncomment=c(ORCID=\"0009-0003-7242-7476\")\n),\nperson(\"Fannie and John Hertz Foundation\", role = \"fnd\")\n)", "Description": "Spatial-eXpression-R (spacexr) is a package for analyzing\ncell types in spatial transcriptomics data. This implementation\nis a fork of the spacexr GitHub repo\n(https://github.com/dmcable/spacexr), adapted to work with\nBioconductor objects. The original package implements two\nstatistical methods: RCTD for learning cell types and CSIDE for\ninferring cell type-specific differential expression.\nCurrently, this fork only implements RCTD, which learns cell\ntype profiles from annotated RNA sequencing (RNA-seq) reference\ndata and uses these profiles to identify cell types in spatial\ntranscriptomic pixels while accounting for platform-specific\neffects. Future releases will include an implementation of\nCSIDE.", "URL": "https://github.com/ggrajeda/spacexr", "BugReports": "https://github.com/ggrajeda/spacexr/issues", "License": "GPL (>= 3)", "Encoding": "UTF-8", "RoxygenNote": "7.3.2", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "biocViews": "GeneExpression, DifferentialExpression, SingleCell, RNASeq,\nSoftware, Spatial, Transcriptomics", "Config/pak/sysreqs": "cmake libfontconfig1-dev libfreetype6-dev make\nlibmagick++-dev gsfonts libicu-dev libuv1-dev libssl-dev\nzlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 13:04:48 UTC", "RemoteUrl": "https://github.com/bioc/spacexr", "RemoteRef": "HEAD", "RemoteSha": "b981b934b5bb557afd4f60a38deacf80acfcfa9d", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-30 09:47:53 UTC", "User": "root" }, "Author": "Dylan Cable [aut],\nRafael Irizarry [aut] (ORCID: ),\nGabriel Grajeda [cre] (ORCID: ),\nFannie and John Hertz Foundation [fnd]", 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