{ "_id": "6a38a9103efcd9bda44393a1", "Package": "karioCaS", "Title": "Kraken Confidence Scores for Reliable Domain-Specific Microbiota\nInference and Discovery", "Version": "0.99.15", "Authors@R": "c(\nperson(\"Thiago\", \"Parente\", , email = \"thiago.parente@fiocruz.br\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0001-7501-726X\")),\nperson(\"Fiocruz\", role = \"fnd\"),\nperson(\"IOC-Fiocruz\", role = \"fnd\"),\nperson(\"CAPES\", role = \"fnd\"))", "Description": "Provides a comprehensive framework for analyzing Kraken2\nmetagenomic classification using multiple confidence scores.\nkarioCaS implements a robust comparative approach to evaluate\ntaxonomic stability across different stringency levels,\nfacilitating the identification of reliable microbiota\ncomponents and the discovery of potentially novel or\nunrepresented species. A key innovation is its domain-specific\nanalysis, separately processing Bacteria, Archaea, Eukaryota,\nand Viruses to ensure balanced visibility of all biological\ndomains. Includes high-quality visualization tools for\nretention rates, shared taxa (Upset plots), and stability\nheatmaps.", "License": "GPL (>= 3)", "Encoding": "UTF-8", "RoxygenNote": "7.3.3", "VignetteBuilder": "knitr", "Config/testthat/edition": "3", "biocViews": "Metagenomics, Microbiome, Software", "URL": "https://github.com/thiagoparentefiocruz/karioCaS", "BugReports": "https://github.com/thiagoparentefiocruz/karioCaS/issues", "Config/pak/sysreqs": "cmake make libicu-dev libjpeg-dev libpng-dev\nlibuv1-dev libxml2-dev libssl-dev libx11-dev zlib1g-dev", "Repository": "https://biocstaging.r-universe.dev", "Date/Publication": "2026-06-21 23:45:02 UTC", "RemoteUrl": "https://github.com/BiocStaging/karioCaS", "RemoteRef": "HEAD", "RemoteSha": "db28778c720e87d0b66dba398e6e6b1d47e2c2e6", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-22 03:09:47 UTC", "User": "root" }, "Author": "Thiago Parente [aut, cre] (ORCID:\n),\nFiocruz [fnd],\nIOC-Fiocruz [fnd],\nCAPES [fnd]", "Maintainer": 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