{ "_id": "6a16b840acfb0bcc41d86724", "Package": "VLF", "Type": "Package", "Title": "Frequency Matrix Approach for Assessing Very Low Frequency\nVariants in Sequence Records", "Version": "1.1-3", "Date": "2025-04-010", "Authors@R": "c(person(given = c(\"Taryn\", \"B.\", \"T.\"),\nfamily = \"Athey\",\nrole = \"cre\",\nemail = \"taryn.athey@gmail.com\"),\nperson(given = c(\"Paul\", \"D.\"),\nfamily = \"McNicholas\",\nrole = \"aut\"),\nperson(given = c(\"Jarrett\", \"D.\"),\nfamily = \"Phillips\",\nrole = \"ctb\"))", "Maintainer": "Taryn B. T. Athey ", "Description": "Using frequency matrices, very low frequency variants\n(VLFs) are assessed for amino acid and nucleotide sequences.\nThe VLFs are then compared to see if they occur in only one\nmember of a species, singleton VLFs, or if they occur in\nmultiple members of a species, shared VLFs. The amino acid and\nnucleotide VLFs are then compared to see if they are concordant\nwith one another. Amino acid VLFs are also assessed to\ndetermine if they lead to a change in amino acid residue type,\nand potential changes to protein structures. Based on Stoeckle\nand Kerr (2012) and Phillips\net al. (2023) .", "License": "GPL (>= 3)", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-27 09:20:04 UTC", "User": "root" }, "Author": "Taryn B. T. Athey [cre], Paul D. McNicholas [aut], Jarrett D.\nPhillips [ctb]", "Repository": "https://tathey.r-universe.dev", "Date/Publication": "2025-04-10 19:20:36 UTC", "RemoteUrl": "https://github.com/cran/VLF", "RemoteRef": "HEAD", "RemoteSha": "5dcf83ce58280ac02bfa51b5477d29c0e0758966", "MD5sum": "3e70b5f9928509f9bedf2bfbcc2e6abc", "_user": "tathey", "_type": "src", "_file": "VLF_1.1-3.tar.gz", "_fileid": "5ba198e20a70a318e3901fdc09ed476a175448f1d58766230fc878761976f8cd", "_filesize": 684482, "_sha256": "5ba198e20a70a318e3901fdc09ed476a175448f1d58766230fc878761976f8cd", "_created": "2026-05-27T09:20:04.000Z", "_published": "2026-05-27T09:24:16.420Z", "_distro": "noble", "_jobs": [ { "job": 78046442367, "time": 123, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7236711164" }, { "job": 78046442328, "time": 119, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7236709996" }, { "job": 78046442365, "time": 205, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7236731597" }, { "job": 78046442261, "time": 173, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7236716922" }, { "job": 78045978746, "time": 164, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7236662593" }, { "job": 78046442224, "time": 99, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7236701816" }, { "job": 78046442390, "time": 87, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7236697113" }, { "job": 78046442306, "time": 126, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7236713753" }, { "job": 78046442423, "time": 92, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7236699705" } ], "_buildurl": "https://github.com/r-universe/tathey/actions/runs/26502389865", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cran/VLF", "_commit": { "id": "5dcf83ce58280ac02bfa51b5477d29c0e0758966", "author": "Taryn B. 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