{ "_id": "6a1be4e21d7bb097a0a1988b", "Package": "RCAS", "Type": "Package", "Title": "RNA Centric Annotation System", "Version": "1.39.0", "Date": "2024-03-19", "Authors@R": "c(person(\"Bora\", \"Uyar\", email='bora.uyar@mdc-berlin.de', role=c(\"aut\", \"cre\")),\nperson(\"Dilmurat\", \"Yusuf\", role=c(\"aut\")),\nperson(\"Ricardo\", \"Wurmus\", role=c(\"aut\")),\nperson(\"Altuna\", \"Akalin\", role=c(\"aut\")))", "Description": "RCAS is an R/Bioconductor package designed as a generic\nreporting tool for the functional analysis of\ntranscriptome-wide regions of interest detected by\nhigh-throughput experiments. Such transcriptomic regions could\nbe, for instance, signal peaks detected by CLIP-Seq analysis\nfor protein-RNA interaction sites, RNA modification sites\n(alias the epitranscriptome), CAGE-tag locations, or any other\ncollection of query regions at the level of the transcriptome.\nRCAS produces in-depth annotation summaries and coverage\nprofiles based on the distribution of the query regions with\nrespect to transcript features (exons, introns, 5'/3' UTR\nregions, exon-intron boundaries, promoter regions). 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For functional enrichment analysis, use findEnrichedFunctions.", "topics": [ "createOrthologousGeneSetList" ] }, { "page": "deleteSampleDataFromDB", "title": "deleteSampleDataFromDB", "topics": [ "deleteSampleDataFromDB" ] }, { "page": "discoverFeatureSpecificMotifs", "title": "discoverFeatureSpecificMotifs", "topics": [ "discoverFeatureSpecificMotifs" ] }, { "page": "extractSequences", "title": "extractSequences", "topics": [ "extractSequences" ] }, { "page": "findDifferentialMotifs", "title": "Find Differential Motifs", "topics": [ "findDifferentialMotifs" ] }, { "page": "findEnrichedFunctions", "title": "findEnrichedFunctions", "topics": [ "findEnrichedFunctions" ] }, { "page": "generateKmers", "title": "Generate K-mers", "topics": [ "generateKmers" ] }, { "page": "getFeatureBoundaryCoverage", "title": "getFeatureBoundaryCoverage", "topics": [ "getFeatureBoundaryCoverage" ] }, { "page": "getFeatureBoundaryCoverageBin", "title": "getFeatureBoundaryCoverageBin", "topics": [ 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