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  "Title": "Automated analysis of CRISPR experiments",
  "Description": "`amplican` performs alignment of the amplicon reads,\nnormalizes gathered data, calculates multiple statistics (e.g.\ncut rates, frameshifts) and presents results in form of\naggregated reports. Data and statistics can be broken down by\nexperiments, barcodes, user defined groups, guides and\namplicons allowing for quick identification of potential\nproblems.",
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  "biocViews": "ImmunoOncology, Technology, Alignment, qPCR, CRISPR",
  "License": "GPL-3",
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  "Repository": "https://bioc.r-universe.dev",
  "Date/Publication": "2026-04-28 12:46:24 UTC",
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  "Author": "Kornel Labun [aut],\nEivind Valen [cph, cre]",
  "Maintainer": "Eivind Valen <eivind.valen@gmail.com>",
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      "title": "Automated analysis of CRISPR experiments.",
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        "amplican"
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      "page": "amplican_print_reads",
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      "package": "libstdc++6",
      "source": "gcc",
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        "Can ampliCan be used for TALENs, NICKASE or other types of genome editing?",
        "I have one control that I want to use for many guides? How should I design the config file?",
        "What is unique reads?",
        "Why are Reads_Edited different from the sum of Reads_Del and Reads_Ins?",
        "Can amplican handle ABI files?",
        "When should I adjust the cutoff for normalization?",
        "What when I have not used unique dual indexing pooling combinations?"
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        "Aligning reads",
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        "Barcode Summary",
        "Groups IDs",
        "Read distribution",
        "Filtered Reads",
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      "title": "Report breakdown by group",
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      "engine": "knitr::rmarkdown",
      "headings": [
        "Description",
        "Group Summary",
        "Read distribution",
        "Filtered reads",
        "Edit rates",
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      "filename": "example_guide_report.html",
      "title": "Report breakdown by guideRNA",
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      "engine": "knitr::rmarkdown",
      "headings": [
        "Description",
        "guideRNA Summary",
        "Read distribution",
        "Filtered Reads",
        "Edit rates",
        "Frameshift",
        "Alignments plots"
      ],
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      "engine": "knitr::rmarkdown",
      "headings": [
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        "ID Summary",
        "Read distribution",
        "Filtered reads",
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      "filename": "example_index.html",
      "title": "Summary Read Report",
      "author": "ampliCan",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Explanation of variables",
        "Total reads",
        "Read Quality",
        "Read assignment",
        "Edits",
        "Reads by barcode",
        "Summary Table"
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      "created": "2017-04-20 13:23:12",
      "modified": "2025-11-11 15:10:45",
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