{
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  "Type": "Package",
  "Title": "Hits Selection for Synthetic Lethal RNAi Screen Data",
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  "Authors@R": "person(given = \"Chunxuan\", family = \"Shao\", role = c(\"aut\", \"cre\"), email = \"chunxuan@outlook.com\")",
  "Description": "Select hits from synthetic lethal RNAi screen data. For\nexample, there are two identical celllines except one gene is\nknocked-down in one cellline. The interest is to find genes\nthat lead to stronger lethal effect when they are knocked-down\nfurther by siRNA. Quality control and various visualisation\ntools are implemented. Four different algorithms could be used\nto pick up the interesting hits. This package is designed based\non 384 wells plates, but may apply to other platforms with\nproper configuration.",
  "License": "GPL-3",
  "biocViews": "ImmunoOncology, CellBasedAssays, QualityControl,\nPreprocessing, Visualization, FeatureExtraction",
  "VignetteBuilder": "knitr",
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  "Encoding": "UTF-8",
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  "Repository": "https://bioc-release.r-universe.dev",
  "Date/Publication": "2026-04-28 12:41:40 UTC",
  "RemoteUrl": "https://github.com/bioc/synlet",
  "RemoteRef": "RELEASE_3_23",
  "RemoteSha": "3231d1e8dad1ec3b4d385261f9b5848fc9ea00df",
  "Packaged": {
    "Date": "2026-05-30 10:56:48 UTC",
    "User": "root"
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  "Author": "Chunxuan Shao [aut, cre]",
  "Maintainer": "Chunxuan Shao <chunxuan@outlook.com>",
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    "author": "A Wokaty <andres.wokaty@sph.cuny.edu>",
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    "message": "bump x.y.z version to even y prior to creation of RELEASE_3_23 branch\n",
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    "qualitycontrol",
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    "featureextraction"
  ],
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    "name": "Bioconductor",
    "description": "Software for the analysis and comprehension of high-throughput genomic data"
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  "_cranurl": false,
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    "rankProdHits",
    "rsaHits",
    "scatterPlot",
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    "tTest",
    "zFactor"
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      "name": "example_dt",
      "title": "Synthetic lethal RNAi screen example data.",
      "object": "example_dt",
      "file": "example_dt.rda",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
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        "MASTER_PLATE",
        "WELL_CONTENT_NAME",
        "EXPERIMENT_TYPE",
        "EXPERIMENT_MODIFICATION",
        "ROW_NAME",
        "COL_NAME",
        "READOUT"
      ],
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      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "bScore",
      "title": "Calculate B-score",
      "topics": [
        "bScore"
      ]
    },
    {
      "page": "example_dt",
      "title": "Synthetic lethal RNAi screen example data.",
      "topics": [
        "example_dt"
      ]
    },
    {
      "page": "madSelect",
      "title": "Select hits basing on median +- k*MAD",
      "topics": [
        "madSelect"
      ]
    },
    {
      "page": "plateHeatmap",
      "title": "Heatmap of all plates",
      "topics": [
        "plateHeatmap"
      ]
    },
    {
      "page": "rankProdHits",
      "title": "Select hits by the rank product method",
      "topics": [
        "rankProdHits"
      ]
    },
    {
      "page": "rsaHits",
      "title": "Select hits by RSA",
      "topics": [
        "rsaHits"
      ]
    },
    {
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      "title": "Scatter plot of RNAi screen results",
      "topics": [
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    },
    {
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        "siRNAPlot"
      ]
    },
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      "title": "student's t-test on B-score",
      "topics": [
        "tTest"
      ]
    },
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      ]
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    "S7",
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    "vctrs",
    "viridisLite",
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  ],
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      "engine": "knitr::rmarkdown",
      "headings": [
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        "Load the package and data.",
        "Quality control",
        "Z and Z' factor",
        "Heatmap of screen data",
        "Scatter plot of screen data",
        "Knock-down effect",
        "Hits selection",
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        "Redundant siRNA activity method",
        "Summary",
        "References"
      ],
      "created": "2015-08-06 17:36:37",
      "modified": "2023-02-01 17:37:18",
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