{ "_id": "6a1edcdcb401979e7340feea", "Package": "HaploCatcher", "Title": "A Predictive Haplotyping Package", "Date": "2023-3-23", "Version": "1.0.4", "Authors@R": "person(\"Zachary\", \"Winn\", , \"zwinn@outlook.com\", role = c(\"aut\", \"cre\"),\ncomment = c(ORCID = \"0000-0003-1543-1527\"))", "Description": "Used for predicting a genotype’s allelic state at a\nspecific locus/QTL/gene. This is accomplished by using both a\ngenotype matrix and a separate file which has categorizations\nabout loci/QTL/genes of interest for the individuals in the\ngenotypic matrix. A training population can be created from a\npanel of individuals who have been previously screened for\nspecific loci/QTL/genes, and this previous screening could be\nsummarized into a category. Using the categorization of\nindividuals which have been genotyped using a genome wide\nmarker platform, a model can be trained to predict what\ncategory (haplotype) an individual belongs in based on their\ngenetic sequence in the region associated with the\nlocus/QTL/gene. These trained models can then be used to\npredict the haplotype of a locus/QTL/gene for individuals which\nhave been genotyped with a genome wide platform yet not\ngenotyped for the specific locus/QTL/gene. This package is\nbased off work done by Winn et al 2021. For more specific\ninformation on this method, refer to\n.", "License": "MIT + file LICENSE", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.2.3", "URL": "https://github.com/zjwinn/HaploCatcher", "BugReports": "https://github.com/zjwinn/HaploCatcher/issues", "LazyData": "true", "Config/testthat/edition": "3", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "libicu-dev", "Repository": "https://zjwinn.r-universe.dev", "Date/Publication": "2024-04-30 16:42:40 UTC", "RemoteUrl": "https://github.com/zjwinn/haplocatcher", "RemoteRef": "HEAD", "RemoteSha": "b8ded2369521a70e335f88336b1adc23575e9e81", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-20 08:27:57 UTC", "User": "root" }, "Author": "Zachary Winn [aut, cre] (ORCID:\n)", "Maintainer": "Zachary Winn ", "MD5sum": "caf7cf1d70ed890a01341498066cd634", "_user": "zjwinn", "_type": "src", "_file": "HaploCatcher_1.0.4.tar.gz", "_fileid": "cd034665b7adc7e25f9046e4bab0c18d151672468d3361b4e7ef30060b61be90", "_filesize": 799539, "_sha256": "cd034665b7adc7e25f9046e4bab0c18d151672468d3361b4e7ef30060b61be90", "_created": "2026-05-20T08:27:57.000Z", "_published": "2026-06-02T13:38:36.410Z", "_distro": "noble", "_jobs": [ { "job": 79083636731, "time": 205, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7105046371" }, { "job": 79083637278, "time": 195, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7105043873" }, { "job": 79083637612, "time": 194, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7105030793" }, { "job": 79083637671, "time": 160, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7105022759" }, { "job": 79083636178, "time": 359, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7104970900" }, { "job": 79083635867, "time": 135, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7359271575" }, { "job": 79083637410, "time": 158, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7105030359" }, { "job": 79083637836, "time": 164, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7105039388" }, { "job": 79083637061, "time": 135, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7105021955" } ], "_buildurl": "https://github.com/r-universe/zjwinn/actions/runs/26150523650", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/zjwinn/haplocatcher", "_commit": { "id": "b8ded2369521a70e335f88336b1adc23575e9e81", "author": "Zachary Winn <86124296+zjwinn@users.noreply.github.com>", "committer": "GitHub ", "message": "Update README.md", "time": 1714495360 }, "_maintainer": { "name": "Zachary Winn", "email": "zwinn@outlook.com", "login": "zjwinn", "linkedin": "in/zwinn", "description": "Wheat Genetics Researcher. ORCID ID: 0000-0003-1543-1527.", "uuid": 86124296, "orcid": "0000-0003-1543-1527" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 2.10", "role": "Depends" }, { "package": "parallel", "role": "Imports" }, { "package": "doParallel", "role": "Imports" }, { "package": "foreach", "role": "Imports" }, { "package": "caret", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "knitr", "role": "Imports" }, { "package": "patchwork", "role": "Imports" }, { "package": "lattice", "role": "Imports" }, { "package": "randomForest", "role": "Imports" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" } ], "_owner": "zjwinn", "_selfowned": true, "_usedby": 0, "_updates": [], "_tags": [], "_topics": [ "genes", "genetics", "locus", "machine-learning", "molecular-genetics", "pipeline", "plantbreeding" ], "_stars": 1, "_contributors": [ { "user": "zjwinn", "count": 79, "uuid": 86124296 }, { "user": "olivroy", "count": 1, "uuid": 52606734 } ], "_userbio": { "uuid": 86124296, "type": "user", "name": "Zachary Winn", "description": "Wheat Genetics Researcher. 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