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split-region sequence names", "topics": [ "process_gtf" ] }, { "page": "scShardSplitRef_options", "title": "Get or Set scShardSplitRef Options", "concept": [ "scShardSplitRef-options" ], "topics": [ "scShardSplitRef_options" ] } ], "_readme": "https://github.com/irinavkuznetsova/scshardsplitref/raw/HEAD/README.md", "_rundeps": [ "cli", "rlang", "stringi", "withr" ], "_vignettes": [ { "source": "scShardSplitRefDetailedAlgorithm.Rmd", "filename": "scShardSplitRefDetailedAlgorithm.html", "title": "scShardSplitRef: Algorithm Description", "author": "Irina Kuznetsova", "engine": "knitr::rmarkdown", "headings": [ "1. Purpose", "2. {scShardSplitRef} Guided Walkthrough Using a Toy Example", "Installation", "Prerequisites", "Input Files", "Workflow", "1. Determine Split Regions", "The Help Page for determine_split_regions()", "Usage Example: determine_split_regions()", "Algorithm Explanation: How determine_split_regions() works", "No Overlap with Gene Coordinates", "Overlap with Gene Coordinates", "2. Process a GTF file by assigning split-region sequence names", "The Help Page for process_gtf()", "Usage Example: process_gtf()", "3. 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