{ "_id": "6a1af7041d7bb097a09fa087", "Package": "gdsfmt", "Type": "Package", "Title": "R Interface to CoreArray Genomic Data Structure (GDS) Files", "Version": "1.49.2", "Date": "2026-05-28", "Author": "Xiuwen Zheng [aut, cre]\n(), Stephanie Gogarten\n[ctb], Jean-loup Gailly and Mark Adler [ctb] (for the included\nzlib sources), Yann Collet [ctb] (for the included LZ4\nsources), xz contributors [ctb] (for the included liblzma\nsources)", "Maintainer": "Xiuwen Zheng ", "Description": "Provides a high-level R interface to CoreArray Genomic\nData Structure (GDS) data files. GDS is portable across\nplatforms with hierarchical structure to store multiple\nscalable array-oriented data sets with metadata information. It\nis suited for large-scale datasets, especially for data which\nare much larger than the available random-access memory. The\ngdsfmt package offers the efficient operations specifically\ndesigned for integers of less than 8 bits, since a diploid\ngenotype, like single-nucleotide polymorphism (SNP), usually\noccupies fewer bits than a byte. Data compression and\ndecompression are available with relatively efficient random\naccess. It is also allowed to read a GDS file in parallel with\nmultiple R processes supported by the package parallel.", "License": "LGPL-3", "Copyright": "This package includes the sources of CoreArray C++ library\nwritten by Xiuwen Zheng (LGPL-3), zlib written by Jean-loup\nGailly and Mark Adler (zlib license), LZ4 written by Yann\nCollet (simplified BSD), and liblzma written by Lasse Collin\nand other xz contributors (public domain).", "VignetteBuilder": "knitr", "ByteCompile": "TRUE", "BugReports": "https://github.com/zhengxwen/gdsfmt/issues", "URL": "https://github.com/zhengxwen/gdsfmt", "biocViews": "Infrastructure, DataImport", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-05-30 02:20:28 UTC", "RemoteUrl": "https://github.com/bioc/gdsfmt", "RemoteRef": "HEAD", "RemoteSha": "dbb2225dfbc1cfb996c55759c5c29ba4d580ef33", "NeedsCompilation": "yes", "Packaged": { "Date": "2026-05-30 09:45:43 UTC", "User": "root" }, "MD5sum": "e678406d54b12d7254a8d98060d919df", 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"Assign/append data to a GDS node", "topics": [ "assign.gdsn" ] }, { "page": "cache.gdsn", "title": "Caching variable data", "topics": [ "cache.gdsn" ] }, { "page": "cleanup.gds", "title": "Clean up fragments", "topics": [ "cleanup.gds" ] }, { "page": "closefn.gds", "title": "Close a GDS file", "topics": [ "closefn.gds" ] }, { "page": "clusterApply.gdsn", "title": "Apply functions over matrix margins in parallel", "topics": [ "clusterApply.gdsn" ] }, { "page": "cnt.gdsn", "title": "Return the number of child nodes", "topics": [ "cnt.gdsn" ] }, { "page": "compression.gdsn", "title": "Modify compression mode", "topics": [ "compression.gdsn" ] }, { "page": "copyto.gdsn", "title": "Copy GDS nodes", "topics": [ "copyto.gdsn" ] }, { "page": "createfn.gds", "title": "Create a GDS file", "topics": [ "createfn.gds" ] }, { "page": "delete.attr.gdsn", "title": "Delete attribute(s)", "topics": [ "delete.attr.gdsn" ] }, { "page": "delete.gdsn", "title": "Delete a GDS node", "topics": [ 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"page": "is.sparse.gdsn", "title": "whether a sparse array or not", "topics": [ "is.sparse.gdsn" ] }, { "page": "lasterr.gds", "title": "Return the last error message", "topics": [ "lasterr.gds" ] }, { "page": "ls.gdsn", "title": "Return the names of child nodes", "topics": [ "ls.gdsn" ] }, { "page": "moveto.gdsn", "title": "Relocate a GDS node", "topics": [ "moveto.gdsn" ] }, { "page": "name.gdsn", "title": "Return the variable name of a node", "topics": [ "name.gdsn" ] }, { "page": "objdesp.gdsn", "title": "Variable description", "topics": [ "objdesp.gdsn" ] }, { "page": "openfn.gds", "title": "Open a GDS file", "topics": [ "openfn.gds" ] }, { "page": "permdim.gdsn", "title": "Array Transposition", "topics": [ "permdim.gdsn" ] }, { "page": "print.gds.class", "title": "Show the information of class \"gds.class\" and \"gdsn.class\"", "topics": [ "print.gds.class", "print.gdsn.class", "show,gdsn.class-method" ] }, { "page": "put.attr.gdsn", "title": "Add an attribute into a GDS node", 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