{ "_id": "6a1edd26b401979e7340ff7f", "Package": "protein8k", "Type": "Package", "Title": "Perform Analysis and Create Visualizations of Proteins", "Version": "0.0.2", "Authors@R": "person(given = \"Simon\",\nfamily = \"Liles\",\nrole = c(\"aut\", \"cre\"),\nemail = \"simon@quantknot.com\")", "Maintainer": "Simon Liles ", "Description": "Read Protein Data Bank (PDB) files, performs its analysis,\nand presents the result using different visualization types\nincluding 3D. The package also has additional capability for\nhandling Virus Report data from the National Center for\nBiotechnology Information (NCBI) database. Nature Structural\nBiology 10, 980 (2003) . US National\nLibrary of Medicine (2021)\n.", "License": "CC0", "Encoding": "UTF-8", "LazyData": "true", "RoxygenNote": "7.3.3", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "cmake make libmagick++-dev gsfonts libuv1-dev\nlibssl-dev zlib1g-dev", "Repository": "https://simonliles.r-universe.dev", "Date/Publication": "2025-12-21 17:55:12 UTC", "RemoteUrl": "https://github.com/simonliles/protein8k", "RemoteRef": "HEAD", "RemoteSha": "3f93b11a4eeab04d2512fc07ff90456afc47ea17", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-20 08:24:14 UTC", "User": "root" }, "Author": "Simon Liles [aut, cre]", "MD5sum": "923499c708529588b137867829a57a6a", "_user": "simonliles", "_type": "src", "_file": "protein8k_0.0.2.tar.gz", "_fileid": "51d51e90ade862567f48206c6d616345c94eb9704f4a71d98f14c778fd2e04d6", "_filesize": 5403205, "_sha256": "51d51e90ade862567f48206c6d616345c94eb9704f4a71d98f14c778fd2e04d6", "_created": "2026-05-20T08:24:14.000Z", "_published": "2026-06-02T13:39:50.026Z", "_distro": "noble", "_jobs": [ { "job": 79083894671, "time": 115, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7104930540" }, { "job": 79083894215, "time": 120, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7104932162" }, { "job": 79083894745, "time": 141, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "OK", "artifact": "7104930627" }, { "job": 79083894069, "time": 172, "config": "macos-release-arm64", "r": "4.6.0", "check": "OK", "artifact": "7104937047" }, { "job": 79083893393, "time": 181, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7104888505" }, { "job": 79083893583, "time": 126, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7359300764" }, { "job": 79083894102, "time": 89, "config": "windows-devel", "r": "4.7.0", "check": "OK", "artifact": "7104920731" }, { "job": 79083894704, "time": 89, "config": "windows-oldrel", "r": "4.5.3", "check": "OK", "artifact": "7104921582" }, { "job": 79083894923, "time": 85, "config": "windows-release", "r": "4.6.0", "check": "OK", "artifact": "7104919281" } ], "_buildurl": "https://github.com/r-universe/simonliles/actions/runs/26150501214", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/simonliles/protein8k", "_commit": { "id": "3f93b11a4eeab04d2512fc07ff90456afc47ea17", "author": "SimonLiles ", "committer": "SimonLiles ", "message": "Fixed CRAN issues\n", "time": 1766339712 }, "_maintainer": { "name": "Simon Liles", "email": "simon@quantknot.com", "login": "simonliles", "description": "Data Science undergraduate Student. \n\nI have experience programming in R and Swift. ", "uuid": 70773861 }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 3.1.2", "role": "Depends" }, { "package": "lattice", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "magick", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "grid", "role": "Imports" }, { "package": "gridExtra", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "rjson", "role": "Imports" }, { "package": "rlang", "role": "Imports" }, { "package": "shiny", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "simonliles", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-51", "n": 2 } ], "_tags": [], "_topics": [ "pdb", "protein", "protein-structure" ], "_stars": 1, "_contributors": [ { "user": "simonliles", "count": 70, "uuid": 70773861 } ], "_userbio": { "uuid": 70773861, "type": "user", "name": "SimonLiles", "description": "Data Science undergraduate Student. \r\n\r\nI have experience programming in R and Swift. " }, "_downloads": { "count": 543, "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/protein8k" }, "_devurl": "https://github.com/simonliles/protein8k", "_searchresults": 4, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/protein8k.html", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/simonliles/protein8k", "_realowner": "simonliles", "_cranurl": true, "_releases": [ { "version": "0.0.1", "date": "2021-08-16" }, { "version": "0.0.2", "date": "2025-12-21" } ], "_exports": [ "fromJSONL", "getAtomicRecord", "getTitleSection", "plot3D", "plotModels", "Protein3D", "read.pdb", "report_as_dataframe", "summary", "summary.Protein", "write_viz" ], "_datasets": [ { "name": "p53_tetramerization", "title": "P53 Tetramerization Domain Crystal Structure", "object": "p53_tetramerization", "class": [ "Protein" ], "fields": [], "table": false, "tojson": false } ], "_help": [ { "page": "fromJSONL", "title": "fromJSONL", "topics": [ "fromJSONL" ] }, { "page": "getAtomicRecord", "title": "getAtomicRecord", "topics": [ "getAtomicRecord" ] }, { "page": "getTitleSection", "title": "getTitleSection", "topics": [ "getTitleSection" ] }, { "page": "p53_tetramerization", "title": "P53 Tetramerization Domain Crystal Structure", "topics": [ "p53_tetramerization" ] }, { "page": "plot3D", "title": "plot3D", "topics": [ "plot3D" ] }, { "page": "plotModels", "title": "plotModels", "topics": [ "plotModels" ] }, { "page": "Protein-class", "title": "Protein Class Definitions", "topics": [ "Protein-class" ] }, { "page": "Protein3D", "title": "plot3DInteractive", "topics": [ "Protein3D" ] }, { "page": "read.pdb", "title": "read.pdb", "topics": [ "read.pdb" ] }, { "page": "report_as_dataframe", "title": "report_as_dataframe", "topics": [ "report_as_dataframe" ] }, { "page": "Protein-summary", "title": "summary.Protein", "topics": [ "summary", "summary,Protein,ANY-method", "summary,Protein-method" ] }, { "page": "summary.Protein", "title": "summary.Protein", "topics": [ "summary.Protein" ] }, { "page": "write_viz", "title": "write_viz", "topics": [ "write_viz" ] } ], "_readme": "https://github.com/simonliles/protein8k/raw/HEAD/README.md", "_rundeps": [ "base64enc", "bslib", "cachem", "cli", "commonmark", "cpp11", "curl", "digest", "dplyr", "farver", "fastmap", "fontawesome", "fs", "generics", "ggplot2", "glue", "gridExtra", "gtable", "htmltools", "httpuv", "isoband", "jquerylib", "jsonlite", "labeling", "later", "lattice", "lifecycle", "magick", "magrittr", "memoise", "mime", "otel", "pillar", "pkgconfig", "promises", "R6", "rappdirs", "RColorBrewer", "Rcpp", "rjson", "rlang", "S7", "sass", "scales", "shiny", "sourcetools", "tibble", "tidyselect", "utf8", "vctrs", "viridisLite", "withr", "xtable" ], "_vignettes": [ { "source": "intro_protein8k.Rmd", "filename": "intro_protein8k.html", "title": "Introduction to protein8k", "author": "Simon Liles", "engine": "knitr::rmarkdown", "headings": [ "Creating a Protein Object", "Inspecting Protein data.", "What is inside a Protein Object", "Plotting a Protein Object", "Generating 3D Plots", "Generating smoothing models of Protein Structure", "-----" ], "created": "2021-04-02 01:21:41", "modified": "2021-04-24 02:07:35", "commits": 4 }, { "source": "using_plot3D.Rmd", "filename": "using_plot3D.html", "title": "Using plot3D()", "author": "Simon Liles", "engine": "knitr::rmarkdown", "headings": [ "The Most Basic Plot", "Animation", "Changing Drawing Type", "Setting groups Variable", "Changing the Orientation Using screen", "Putting it all Together" ], "created": "2021-04-25 20:23:02", "modified": "2021-04-25 20:23:02", "commits": 1 } ], "_score": 4, "_indexed": true, "_nocasepkg": "protein8k", "_universes": [ "simonliles" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.0.2", "date": "2026-05-20T08:26:11.000Z", "distro": "noble", "commit": "3f93b11a4eeab04d2512fc07ff90456afc47ea17", "fileid": "ed5b2e6e16a81aeae19d83eceab4daf93d6f6d9f98b43df0a237d00025ddf8d9", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/simonliles/actions/runs/26150501214" }, { "r": "4.6.0", "os": "linux", "version": "0.0.2", "date": "2026-05-20T08:26:16.000Z", "distro": "noble", "commit": "3f93b11a4eeab04d2512fc07ff90456afc47ea17", "fileid": "950fe5b28b81075d9c066b58082c1ef6419687965a5933b3673b8132c4a54794", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/simonliles/actions/runs/26150501214" }, { "r": "4.5.3", "os": "mac", "version": "0.0.2", "date": "2026-05-20T08:26:16.000Z", "commit": "3f93b11a4eeab04d2512fc07ff90456afc47ea17", "fileid": "530cdb0a4c3d44c7954db3698ba47eada251885bad4a588eda92377e000b6f67", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/simonliles/actions/runs/26150501214" }, { "r": "4.6.0", "os": "mac", "version": "0.0.2", "date": "2026-05-20T08:26:27.000Z", "commit": "3f93b11a4eeab04d2512fc07ff90456afc47ea17", "fileid": "f8ee10d9164cfc95e231220b4a19eef63276ef78aeb0ec5ca9a951d56ad721f4", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/simonliles/actions/runs/26150501214" }, { "r": "4.7.0", "os": "win", "version": "0.0.2", "date": "2026-05-20T08:25:40.000Z", "commit": "3f93b11a4eeab04d2512fc07ff90456afc47ea17", "fileid": "40e6304e4395b9908c11793967195c0d9ea4c1a86dd86d5b25b684f9831b3f05", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/simonliles/actions/runs/26150501214" }, { "r": "4.5.3", "os": "win", "version": "0.0.2", "date": "2026-05-20T08:25:42.000Z", "commit": "3f93b11a4eeab04d2512fc07ff90456afc47ea17", "fileid": "ea9fc242a666615924afcfab94570da90a93cf4f80c8ca5289496c71ef3eb787", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/simonliles/actions/runs/26150501214" }, { "r": "4.6.0", "os": "win", "version": "0.0.2", "date": "2026-05-20T08:25:34.000Z", "commit": "3f93b11a4eeab04d2512fc07ff90456afc47ea17", "fileid": "5be0c094c16890c46237527738650b23d2cc54960b46c8764e0a8e81aa768627", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/simonliles/actions/runs/26150501214" }, { "r": "4.6.0", "os": "wasm", "version": "0.0.2", "date": "2026-06-02T13:38:40.000Z", "commit": "3f93b11a4eeab04d2512fc07ff90456afc47ea17", "fileid": "b66b573e209128c4943f12d8b9e58a4e61b64552cd003e73f973597c51ef4fbb", "status": "success", "buildurl": "https://github.com/r-universe/simonliles/actions/runs/26150501214" } ] }