{ "_id": "6a103cdfacfb0bcc41c9c124", "Package": "CRISPRball", "Title": "Shiny Application for Interactive CRISPR Screen Visualization,\nExploration, Comparison, and Filtering", "Version": "1.9.0", "Authors@R": "c(person(given = \"Jared\",\nfamily = \"Andrews\",\nrole = c(\"aut\", \"cre\"),\nemail = \"jared.andrews07@gmail.com\",\ncomment = c(ORCID = \"0000-0002-0780-6248\")),\nperson(given = \"Jacob\",\nfamily = \"Steele\",\nrole = \"ctb\",\ncomment = c(ORCID = \"0000-0001-9924-2226\")))", "Description": "A Shiny application for visualization, exploration,\ncomparison, and filtering of CRISPR screens analyzed with\nMAGeCK RRA or MLE. Features include interactive plots with\non-click labeling, full customization of plot aesthetics, data\nupload and/or download, and much more. Quickly and easily\nexplore your CRISPR screen results and generate\npublication-quality figures in seconds.", "License": "MIT + file LICENSE", "URL": "https://github.com/j-andrews7/CRISPRball", "BugReports": "https://support.bioconductor.org/", "Encoding": "UTF-8", "Roxygen": "list(markdown = TRUE)", "RoxygenNote": "7.3.2", "biocViews": "Software, ShinyApps, CRISPR, QualityControl, Visualization,\nGUI", "LazyData": "false", "Config/testthat/edition": "3", "VignetteBuilder": "knitr", "Config/pak/sysreqs": "cmake libfontconfig1-dev libfreetype6-dev\nlibfribidi-dev make libharfbuzz-dev libicu-dev libpng-dev\nlibuv1-dev libxml2-dev libssl-dev perl zlib1g-dev", "Repository": "https://bioc.r-universe.dev", "Date/Publication": "2026-04-28 13:02:08 UTC", "RemoteUrl": "https://github.com/bioc/CRISPRball", "RemoteRef": "HEAD", "RemoteSha": "8bce8d88c9395e6caa2a98fb0865e3820b861ef4", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-11 10:08:02 UTC", "User": "root" }, "Author": "Jared Andrews [aut, cre] (ORCID:\n),\nJacob Steele [ctb] (ORCID: )", "Maintainer": "Jared Andrews ", "MD5sum": "344a3a63fd765c18c13c10a9033c568f", "_user": "bioc", "_type": "src", "_file": "CRISPRball_1.9.0.tar.gz", "_fileid": "365a9b758a89179b85d229abd4309d95808aa083f0ee9829f45d468976ad6d24", "_filesize": 2616514, "_sha256": "365a9b758a89179b85d229abd4309d95808aa083f0ee9829f45d468976ad6d24", "_created": "2026-05-11T10:08:02.000Z", "_published": "2026-05-22T11:24:15.085Z", "_jobs": [ { "job": 77369483048, "time": 274, "config": "bioc-checks", "r": "4.6.0", "check": "NOTE", "artifact": "6915784201" }, { "job": 77369483085, "time": 449, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "NOTE", "artifact": "6915840880" }, { "job": 77369483152, "time": 482, "config": "linux-release-x86_64", "r": "4.6.0", "check": "NOTE", "artifact": "6915851934" }, { "job": 77369483013, "time": 255, "config": "macos-oldrel-arm64", "r": "4.5.3", "check": "NOTE", "artifact": "6915859326" }, { "job": 77369483150, "time": 329, "config": "macos-release-arm64", "r": "4.6.0", "check": "NOTE", "artifact": "6915862938" }, { "job": 77369482353, "time": 358, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "6915695451" }, { "job": 77369482613, "time": 264, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7159323404" }, { "job": 77369483320, "time": 537, "config": "windows-devel", "r": "4.7.0", "check": "NOTE", "artifact": "6915870165" }, { "job": 77369483376, "time": 515, "config": "windows-oldrel", "r": "4.5.3", "check": "NOTE", "artifact": "6915863143" }, { "job": 77369483106, "time": 397, "config": "windows-release", "r": "4.6.0", "check": "NOTE", "artifact": "6915823815" } ], "_bioccheck": { "error": 0, "warning": 0, "note": 8 }, "_buildurl": "https://github.com/r-universe/bioc/actions/runs/25663501401", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/bioc/CRISPRball", "_commit": { "id": "8bce8d88c9395e6caa2a98fb0865e3820b861ef4", "author": "A Wokaty ", "committer": "A Wokaty ", "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n", "time": 1777381328 }, "_maintainer": { "name": "Jared Andrews", "email": "jared.andrews07@gmail.com", "login": "j-andrews7", "twitter": "@JMA_Data", "uuid": 10225716, "orcid": "0000-0002-0780-6248" }, "_distro": "noble", "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.4.0", "role": "Depends" }, { "package": "shinyBS", "role": "Depends" }, { "package": "DT", "role": "Imports" }, { "package": "shiny", "role": "Imports" }, { "package": "grid", "role": "Imports" }, { "package": "ComplexHeatmap", "role": "Imports" }, { "package": "InteractiveComplexHeatmap", "role": "Imports" }, { "package": "graphics", "role": "Imports" }, { "package": "stats", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "plotly", "role": "Imports" }, { "package": "shinyWidgets", "role": "Imports" }, { "package": "shinycssloaders", "role": "Imports" }, { "package": "shinyjqui", "role": "Imports" }, { "package": "dittoSeq", "role": "Imports" }, { "package": "matrixStats", "role": "Imports" }, { "package": "colourpicker", "role": "Imports" }, { "package": "shinyjs", "role": "Imports" }, { "package": "circlize", "role": "Imports" }, { "package": "PCAtools", "role": "Imports" }, { "package": "utils", "role": "Imports" }, { "package": "grDevices", "role": "Imports" }, { "package": "htmlwidgets", "role": "Imports" }, { "package": "methods", "role": "Imports" }, { "package": "BiocStyle", "role": "Suggests" }, { "package": "msigdbr", "role": "Suggests" }, { "package": "depmap", "role": "Suggests" }, { "package": "pool", "role": "Suggests" }, { "package": "RSQLite", "role": "Suggests" }, { "package": "mygene", "role": "Suggests" }, { "package": "testthat", "version": ">= 3.0.0", "role": "Suggests" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" } ], "_owner": "bioc", "_selfowned": true, "_usedby": 0, "_updates": [ { "week": "2025-44", "n": 2 }, { "week": "2026-18", "n": 2 } ], "_tags": [], "_bioc": [ { "branch": "devel", "version": "1.9.0", "bioc": "3.24" }, { "branch": "release", "version": "1.8.0", "bioc": "3.23" } ], "_topics": [ "software", "shinyapps", "crispr", "qualitycontrol", "visualization", "gui", "crispr-screen", "data-visualization", "interactive-visualizations", "mageck", "plotly", "screening", "shiny" ], "_stars": 13, "_contributors": [ { "user": "j-andrews7", "count": 198, "uuid": 10225716 }, { "user": "jake-steele", "count": 13, "uuid": 24993066 }, { "user": "jwokaty", "count": 6, "uuid": 1744257 } ], "_userbio": { "uuid": 2286807, "type": "organization", "name": "Bioconductor", "description": "Software for the analysis and comprehension of high-throughput genomic data" }, "_downloads": { "count": 246, "source": "https://www.bioconductor.org/packages/stats/bioc/CRISPRball" }, "_devurl": "https://github.com/j-andrews7/crisprball", "_searchresults": 24, "_rbuild": "4.6.0", "_assets": [ "extra/citation.cff", "extra/citation.html", "extra/citation.json", "extra/citation.txt", "extra/contents.json", "extra/CRISPRball.html", "extra/NEWS.html", "extra/NEWS.txt", "extra/readme.html", "extra/readme.md", "manual.pdf" ], "_homeurl": "https://github.com/j-andrews7/crisprball", "_realowner": "bioc", "_cranurl": false, "_exports": [ "build_depmap_db", "CRISPRball", "gene_ingress", "get_depmap_essentiality", "get_depmap_plot_data", "plot_bar", "plot_correlation_heatmap", "plot_depmap_cn", "plot_depmap_dependency", "plot_depmap_expression", "plot_depmap_lineages", "plot_hist", "plot_lawn", "plot_pca_biplot", "plot_rank", "plot_volcano", "read_mle_gene_summary" ], "_datasets": [ { "name": "depmap_22q1_cn", "title": "DepMap copy number data", "object": "depmap_22q1_cn", "file": "depmap_22q1_cn.rda", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "depmap_id", "log_copy_number", "entrez_id", "gene_name", "cell_line_name", "primary_disease", "lineage", "lineage_subtype", "hover.string" ], "rows": 1754, "table": true, "tojson": true }, { "name": "depmap_22q1_crispr", "title": "DepMap CRISPR screen data", "object": "depmap_22q1_crispr", "file": "depmap_22q1_crispr.rda", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "depmap_id", "dependency", "entrez_id", "gene_name", "cell_line_name", "primary_disease", "lineage", "lineage_subtype", "hover.string" ], "rows": 1070, "table": true, "tojson": true }, { "name": "depmap_22q1_crispr_rnai", "title": "DepMap CRISPR & RNAi screen data", "object": "depmap_22q1_crispr_rnai", "file": "depmap_22q1_crispr_rnai.rda", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "depmap_id", "dependency", "entrez_id", "gene_name", "dataset", "cell_line_name", "primary_disease", "lineage", "lineage_subtype", "hover.string" ], "rows": 1782, "table": true, "tojson": true }, { "name": "depmap_22q1_rnai", "title": "DepMap RNAi screen data", "object": "depmap_22q1_rnai", "file": "depmap_22q1_rnai.rda", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "dependency", "entrez_id", "gene_name", "depmap_id", "cell_line_name", "primary_disease", "lineage", "lineage_subtype", "hover.string" ], "rows": 712, "table": true, "tojson": true }, { "name": "depmap_22q1_TPM", "title": "DepMap expression data", "object": "depmap_22q1_TPM", "file": "depmap_22q1_TPM.rda", "class": [ "tbl_df", "tbl", "data.frame" ], "fields": [ "depmap_id", "rna_expression", "entrez_id", "gene_name", "cell_line_name", "primary_disease", "lineage", "lineage_subtype", "hover.string" ], "rows": 1393, "table": true, "tojson": true } ], "_help": [ { "page": "build_depmap_db", "title": "Build SQLite database of DepMap data", "topics": [ "build_depmap_db" ] }, { "page": "CRISPRball", "title": "Create an interactive Shiny app for visualization & exploration of CRISPR analyses", "topics": [ "CRISPRball" ] }, { "page": "depmap_22q1_cn", "title": "DepMap copy number data", "topics": [ "depmap_22q1_cn" ] }, { "page": "depmap_22q1_crispr", "title": "DepMap CRISPR screen data", "topics": [ "depmap_22q1_crispr" ] }, { "page": "depmap_22q1_crispr_rnai", "title": "DepMap CRISPR & RNAi screen data", "topics": [ "depmap_22q1_crispr_rnai" ] }, { "page": "depmap_22q1_rnai", "title": "DepMap RNAi screen data", "topics": [ "depmap_22q1_rnai" ] }, { "page": "depmap_22q1_TPM", "title": "DepMap expression data", "topics": [ "depmap_22q1_TPM" ] }, { "page": "gene_ingress", "title": "Parse gene summary data for easier plotting and display", "topics": [ "gene_ingress" ] }, { "page": "get_depmap_essentiality", "title": "Get essential/selective gene information from DepMap summary table.", "topics": [ "get_depmap_essentiality" ] }, { "page": "get_depmap_plot_data", "title": "Create DepMap dataframe for plotting", "topics": [ "get_depmap_plot_data" ] }, { "page": "plot_bar", "title": "Create interactive bar plot", "topics": [ "plot_bar" ] }, { "page": "plot_correlation_heatmap", "title": "Plot a Correlation Heatmap", "topics": [ "plot_correlation_heatmap" ] }, { "page": "plot_depmap_cn", "title": "Plot gene copy number information from DepMap", "topics": [ "plot_depmap_cn" ] }, { "page": "plot_depmap_dependency", "title": "Plot gene dependency information from DepMap CRISPR and RNAi tables", "topics": [ "plot_depmap_dependency" ] }, { "page": "plot_depmap_expression", "title": "Plot gene expression information from DepMap, mostly from CCLE", "topics": [ "plot_depmap_expression" ] }, { "page": "plot_depmap_lineages", "title": "Plot selected information across lineages from DepMap.", "topics": [ "plot_depmap_lineages" ] }, { "page": "plot_hist", "title": "Create a plotly plot from a distribution of values", "topics": [ "plot_hist" ] }, { "page": "plot_lawn", "title": "Create an interactive lawn plot", "topics": [ "plot_lawn" ] }, { "page": "plot_pca_biplot", "title": "Plot a biplot from a PCAtools 'pca' object", "topics": [ "plot_pca_biplot" ] }, { "page": "plot_rank", "title": "Create an interactive rank plot", "topics": [ "plot_rank" ] }, { "page": "plot_volcano", "title": "Create an interactive volcano plot", "topics": [ "plot_volcano" ] }, { "page": "read_mle_gene_summary", "title": "Read and parse MAGeCK MLE output gene summary file", "topics": [ "read_mle_gene_summary" ] } ], "_readme": "https://github.com/bioc/CRISPRball/raw/HEAD/README.md", "_rundeps": [ "abind", "askpass", "assorthead", "base64enc", "beachmat", "BH", "Biobase", "BiocGenerics", "BiocParallel", "BiocSingular", "bslib", "cachem", "circlize", "cli", "clisymbols", "clue", "cluster", "codetools", "colorspace", "colourpicker", "commonmark", "ComplexHeatmap", "cowplot", "cpp11", "crayon", "crosstalk", "curl", "data.table", "DelayedArray", "DelayedMatrixStats", "digest", "dittoSeq", "doParallel", "dplyr", "dqrng", "DT", "evaluate", "farver", "fastmap", "fontawesome", "foreach", "formatR", "fs", "futile.logger", "futile.options", "generics", "GenomicRanges", "GetoptLong", "ggplot2", "ggrepel", "ggridges", "GlobalOptions", "glue", "gridExtra", "gtable", "highr", "htmltools", "htmlwidgets", "httpuv", "httr", "InteractiveComplexHeatmap", "IRanges", "irlba", "isoband", "iterators", "jquerylib", "jsonlite", "kableExtra", "knitr", "labeling", "lambda.r", "later", "lattice", "lazyeval", "lifecycle", "magrittr", "Matrix", "MatrixGenerics", "matrixStats", "memoise", "mime", "miniUI", "openssl", "otel", "PCAtools", "pheatmap", "pillar", "pkgconfig", "plotly", "plyr", "png", "promises", "purrr", "R6", "rappdirs", "RColorBrewer", "Rcpp", "reshape2", "rjson", "rlang", "rmarkdown", "rstudioapi", "rsvd", "S4Arrays", "S4Vectors", "S7", "sass", "ScaledMatrix", "scales", "Seqinfo", "shape", "shiny", "shinyBS", "shinycssloaders", "shinyjqui", "shinyjs", "shinyWidgets", "SingleCellExperiment", "sitmo", "snow", "sourcetools", "SparseArray", "sparseMatrixStats", "stringi", "stringr", "SummarizedExperiment", "svglite", "sys", "systemfonts", "textshaping", "tibble", "tidyr", "tidyselect", "tinytex", "utf8", "vctrs", "viridisLite", "withr", "xfun", "xml2", "xtable", "XVector", "yaml" ], "_vignettes": [ { "source": "CRISPRball.Rmd", "filename": "CRISPRball.html", "title": "CRISPRball Quick Start", "author": "Jared Andrews", "engine": "knitr::rmarkdown", "headings": [ "Introduction", "Installation", "Usage", "MAGeCK MLE Output", "The QC Tab", "Highlighting Gene(sets)", "The sgRNA Tab", "The DepMap Tab" ], "created": "2022-05-03 22:17:59", "modified": "2023-10-18 03:18:59", "commits": 7 } ], "_score": 5.795184589682424, "_indexed": true, "_nocasepkg": "crisprball", "_universes": [ "bioc", "j-andrews7" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "1.9.0", "date": "2026-05-11T10:12:50.000Z", "distro": "noble", "commit": "8bce8d88c9395e6caa2a98fb0865e3820b861ef4", "fileid": "139026fd6727a062beba93ab38be90293b72bd6498c22f19b49101b04ada8197", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663501401" }, { "r": "4.6.0", "os": "linux", "version": "1.9.0", "date": "2026-05-11T10:13:24.000Z", "distro": "noble", "commit": "8bce8d88c9395e6caa2a98fb0865e3820b861ef4", "fileid": "954927b33ef0720e5567a253ebbd101a6e872459bb16aa143668f2b0745ad826", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663501401" }, { "r": "4.5.3", "os": "mac", "version": "1.9.0", "date": "2026-05-11T10:14:30.000Z", "commit": "8bce8d88c9395e6caa2a98fb0865e3820b861ef4", "fileid": "7c4992b03b4c1cb53d44e65ecd27c4b5ad38798aaa1155b549f878457d233489", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663501401" }, { "r": "4.6.0", "os": "mac", "version": "1.9.0", "date": "2026-05-11T10:13:52.000Z", "commit": "8bce8d88c9395e6caa2a98fb0865e3820b861ef4", "fileid": "1368a659b8077e1c2f267c320b4682fe964544024b54aecd9842b976d6ca73b6", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663501401" }, { "r": "4.7.0", "os": "win", "version": "1.9.0", "date": "2026-05-11T10:13:53.000Z", "commit": "8bce8d88c9395e6caa2a98fb0865e3820b861ef4", "fileid": "600e01f945c5353326f583ee6c26967ee423dbfde27ee0dd0cdd1735f6cb274f", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663501401" }, { "r": "4.5.3", "os": "win", "version": "1.9.0", "date": "2026-05-11T10:13:45.000Z", "commit": "8bce8d88c9395e6caa2a98fb0865e3820b861ef4", "fileid": "83abb71cdae69880c97524e742862cb747024fc2ec54083691a0f283db40c8fe", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663501401" }, { "r": "4.6.0", "os": "win", "version": "1.9.0", "date": "2026-05-11T10:11:54.000Z", "commit": "8bce8d88c9395e6caa2a98fb0865e3820b861ef4", "fileid": "f891c86012ad2484cce1c4c1e80ad52fa5d4a28014c9cdaa7212e25b0994246f", "status": "success", "check": "NOTE", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663501401" }, { "r": "4.6.0", "os": "wasm", "version": "1.9.0", "date": "2026-05-22T11:23:48.000Z", "commit": "8bce8d88c9395e6caa2a98fb0865e3820b861ef4", "fileid": "873b352e6e429231c82c95fd8bcabb66e88d35162d89d2645f737c129c86d50f", "status": "success", "buildurl": "https://github.com/r-universe/bioc/actions/runs/25663501401" } ] }