{ "_id": "6a3f7b87a319ef941449b9c3", "Package": "diffdriver", "Type": "Package", "Title": "Identify differential selection", "Version": "0.1.7", "Authors@R": "c(\nperson(\"Siming\", \"Zhao\", , \"siming.zhao06@gmail.com\", role = c(\"aut\", \"cre\")),\nperson(\"Jie\", \"Zhou\", role = \"aut\"),\nperson(\"Qirui\", \"Zhang\", role = \"aut\")\n)", "Maintainer": "Siming Zhao ", "Description": "This package implements a statistical method to detect\ndifferential selection of somatic mutations under different\nenvironments", "License": "MIT", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.2.3", "Config/testthat/edition": "3", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "cmake make libicu-dev libuv1-dev libssl-dev", "Repository": "https://szhaolab.r-universe.dev", "Date/Publication": "2026-06-23 05:07:44 UTC", "RemoteUrl": "https://github.com/szhaolab/diffdriver", "RemoteRef": "HEAD", "RemoteSha": "8eb3b0f8206ebcad602cd89453eaad5221202701", "NeedsCompilation": "no", "Packaged": { "Date": "2026-06-27 07:24:01 UTC", "User": "root" }, "Author": "Siming Zhao [aut, cre],\nJie Zhou [aut],\nQirui Zhang [aut]", "MD5sum": "f7625ae5858eed5fd7fd9a2dc8051883", "_user": "szhaolab", "_type": "src", "_file": "diffdriver_0.1.7.tar.gz", "_fileid": "39314ec92b3e4bfbde24cf0140c5e9bf0514c29df8dcfa492a3a9eee167a6228", "_filesize": 956505, "_sha256": "39314ec92b3e4bfbde24cf0140c5e9bf0514c29df8dcfa492a3a9eee167a6228", "_created": "2026-06-27T07:24:01.000Z", "_published": "2026-06-27T07:28:07.639Z", "_distro": "resolute", "_jobs": [ { "job": 83800584388, "time": 181, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "ERROR", "artifact": "7922363402" }, { "job": 83800584391, "time": 212, "config": "linux-release-x86_64", "r": "4.6.1", "check": "ERROR", "artifact": "7922367834" }, { "job": 83800584401, "time": 142, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "ERROR", "artifact": "7922358502" }, { "job": 83800584394, "time": 174, "config": "macos-release-arm64", "r": "4.6.1", "check": "ERROR", "artifact": "7922362421" }, { "job": 83800342184, "time": 244, "config": "source", "r": "4.6.1", "check": "OK", "artifact": "7922339461" }, { "job": 83800584387, "time": 176, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7922362769" }, { "job": 83800584432, "time": 137, "config": "windows-devel", "r": "4.7.0", "check": "ERROR", "artifact": "7922357748" }, { "job": 83800584406, "time": 102, "config": "windows-oldrel", "r": "4.5.3", "check": "ERROR", "artifact": "7922353177" }, { "job": 83800584407, "time": 110, "config": "windows-release", "r": "4.6.1", "check": "ERROR", "artifact": "7922354272" } ], "_buildurl": "https://github.com/r-universe/szhaolab/actions/runs/28282343032", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/szhaolab/diffdriver", "_commit": { "id": "8eb3b0f8206ebcad602cd89453eaad5221202701", "author": "Qirui Zhang ", "committer": "Qirui Zhang ", "message": "Update tutorial with diffdriver 0.1.7\n", "time": 1782191264 }, "_maintainer": { "name": "Siming Zhao", "email": "siming.zhao@dartmouth.edu", "login": "simingz", "description": "Assistant Professor at Dartmouth College", "uuid": 7595604 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.5.0", "role": "Depends" }, { "package": "Matrix", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "data.table", "role": "Imports" }, { "package": "plyr", "role": "Imports" }, { "package": "brglm", "role": "Imports" }, { "package": "fastTopics", "role": "Imports" }, { "package": "matrixStats", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "logging", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" } ], "_owner": "szhaolab", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2026-07", "n": 3 }, { "week": "2026-12", "n": 2 }, { "week": "2026-26", "n": 5 } ], "_tags": [], "_stars": 0, "_contributors": [ { "user": "jiezhou-2", "count": 198, "uuid": 51555963 }, { "user": "simingz", "count": 52, "uuid": 7595604 }, { "user": "atvorundunn", "count": 11, "uuid": 47759175 }, { "user": "ld-zhangqr", "count": 8, "uuid": 90957965 } ], "_userbio": { "uuid": 89938691, "type": "organization", "name": "szhaolab", "followers": 3 }, "_downloads": { "count": 0, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/diffdriver" }, "_devurl": "https://github.com/szhaolab/diffdriver", "_searchresults": 4, "_rbuild": "4.6.1", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/diffdriver.html", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/szhaolab/diffdriver", "_realowner": "szhaolab", "_cranurl": true, "_releases": [ { "version": "0.1.7", "date": "2026-06-26" } ], "_exports": [ "ddmodel", "ddmodel_binary", "ddmodel_binary_simple", "diffdriver", "genebinom", "genefisher", "genelr", "mlr", "mlr.v2", "plot_mut" ], "_help": [ { "page": "ddmcode", "title": "Add intercept, if have functtypecode, then code and move to the front. different from driverMAPS! only allows functtypecode =7 ||8 when functypecode is included in selectvars.", "topics": [ "ddmcode" ] }, { "page": "ddmodel", "title": "diffDriver model", "topics": [ "ddmodel" ] }, { "page": "ddmodel_binary", "title": "diffDriver model only for binary phenotype.", "topics": [ "ddmodel_binary" ] }, { "page": "ddmodel_binary_simple", "title": "diffDriver model only for binary phenotype, assuming bmr the same across samples.", "topics": [ "ddmodel_binary_simple" ] }, { "page": "diffdriver", "title": "Run diffDriver with Input Files", "topics": [ "diffdriver" ] }, { "page": "genebinom", "title": "gene level binomial test", "topics": [ "genebinom" ] }, { "page": "genefisher", "title": "gene level fisher's exact test", "topics": [ "genefisher" ] }, { "page": "genelr", "title": "gene level logistic regression", "topics": [ "genelr" ] }, { "page": "mlr", "title": "gene level multiple linear regression", "topics": [ "mlr" ] }, { "page": "mlr.v2", "title": "gene level multiple linear regression, correcting for total number of mutations", "topics": [ "mlr.v2" ] }, { "page": "optifix", "title": "optifix. Optimise with fixed parameters", "topics": [ "optifix" ] }, { "page": "plot_mut", "title": "plot phenotype, mutation and annotation for a gene across samples", "topics": [ "plot_mut" ] } ], "_readme": "https://github.com/szhaolab/diffdriver/raw/HEAD/README.md", "_rundeps": [ "ashr", "askpass", "base64enc", "BH", "brglm", "bslib", "cachem", "cli", "cowplot", "cpp11", "crayon", "crosstalk", "curl", "data.table", "digest", "dplyr", "dqrng", "etrunct", "evaluate", "farver", "fastmap", "fastTopics", "FNN", "fontawesome", "fs", "generics", "ggplot2", "ggrepel", "glue", "gtable", "gtools", "highr", "hms", "htmltools", "htmlwidgets", "httr", "invgamma", "irlba", "isoband", "jquerylib", "jsonlite", "knitr", "labeling", "later", "lattice", "lazyeval", "lifecycle", "magrittr", "Matrix", "matrixStats", "memoise", "mime", "mixsqp", "openssl", "otel", "pbapply", "pillar", "pkgconfig", "plotly", "plyr", "prettyunits", "profileModel", "progress", "promises", "purrr", "quadprog", "R6", "rappdirs", "RColorBrewer", "Rcpp", "RcppAnnoy", "RcppArmadillo", "RcppEigen", "RcppParallel", "RcppProgress", "reshape2", "RhpcBLASctl", "rlang", "rmarkdown", "RSpectra", "Rtsne", "S7", "sass", "scales", "sitmo", "SQUAREM", "stringi", "stringr", "sys", "tibble", "tidyr", "tidyselect", "tinytex", "truncnorm", "utf8", "uwot", "vctrs", "viridisLite", "withr", "xfun", "yaml" ], "_score": 3.6532125137753435, "_indexed": true, "_nocasepkg": "diffdriver", "_universes": [ "szhaolab", "simingz" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.1.7", "date": "2026-06-27T07:26:52.000Z", "distro": "resolute", "commit": "8eb3b0f8206ebcad602cd89453eaad5221202701", "fileid": "3912e067b2def097a27eb860cf9f4dc2d6e65d8771f05eddd3947b66821d3065", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/szhaolab/actions/runs/28282343032" }, { "r": "4.6.1", "os": "linux", "version": "0.1.7", "date": "2026-06-27T07:27:23.000Z", "distro": "resolute", "commit": "8eb3b0f8206ebcad602cd89453eaad5221202701", "fileid": "c258d28fb7618455f68bb3303456a5a3f95fb2d23e87ae4223bf21dfd8429909", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/szhaolab/actions/runs/28282343032" }, { "r": "4.5.3", "os": "mac", "version": "0.1.7", "date": "2026-06-27T07:26:20.000Z", "commit": "8eb3b0f8206ebcad602cd89453eaad5221202701", "fileid": "08435eb6026e298b6048e82925a151cc3ad4069a623d431acbb776f38f07e34d", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/szhaolab/actions/runs/28282343032" }, { "r": "4.6.1", "os": "mac", "version": "0.1.7", "date": "2026-06-27T07:26:43.000Z", "commit": "8eb3b0f8206ebcad602cd89453eaad5221202701", "fileid": "fca9c10fdf20c75dd41002b918794fba32b179d620f043d5e5022fcb5b45eeb2", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/szhaolab/actions/runs/28282343032" }, { "r": "4.6.0", "os": "wasm", "version": "0.1.7", "date": "2026-06-27T07:27:15.000Z", "commit": "8eb3b0f8206ebcad602cd89453eaad5221202701", "fileid": "5814cc6fb68c8c484dd38014e2453f045a5651c523ffec56d6dcdcc8bbc6d35a", "status": "success", "buildurl": "https://github.com/r-universe/szhaolab/actions/runs/28282343032" }, { "r": "4.7.0", "os": "win", "version": "0.1.7", "date": "2026-06-27T07:26:07.000Z", "commit": "8eb3b0f8206ebcad602cd89453eaad5221202701", "fileid": "5061b3864610f260efe70abd2c719cb78a2beb0ab57813825c5b81a27628c69d", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/szhaolab/actions/runs/28282343032" }, { "r": "4.5.3", "os": "win", "version": "0.1.7", "date": "2026-06-27T07:25:30.000Z", "commit": "8eb3b0f8206ebcad602cd89453eaad5221202701", "fileid": "2a72701a42035b6250a0fc5ece4618c883bc556c549ed0104075ff6bf9757bdc", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/szhaolab/actions/runs/28282343032" }, { "r": "4.6.1", "os": "win", "version": "0.1.7", "date": "2026-06-27T07:25:38.000Z", "commit": "8eb3b0f8206ebcad602cd89453eaad5221202701", "fileid": "cd7447fbbffef4b53e93937a3fad78b2eca2bb848b59f29f1d45329092442173", "status": "failure", "check": "ERROR", "buildurl": "https://github.com/r-universe/szhaolab/actions/runs/28282343032" } ] }