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        If you use plots from MultiQC in a publication or presentation, please cite:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        About MultiQC

        This report was generated using MultiQC, version 1.0.dev0

        You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

        For more information about MultiQC, including other videos and extensive documentation, please visit http://multiqc.info

        You can report bugs, suggest improvements and find the source code for MultiQC on GitHub: https://github.com/ewels/MultiQC

        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2021-02-21, 15:02 based on data in:

        Welcome! Not sure where to start?   Watch a tutorial video   (6:06)

        General Statistics

        Showing 8/8 rows and 6/8 columns.
        Sample Name% mCpG% mCHG% mCHHM C's% Dups% Aligned
        zr3616_1_R1_val_1_val_1_val_1
        10.9%
        0.5%
        0.6%
        1535.8
        24.4%
        63.1%
        zr3616_2_R1_val_1_val_1_val_1
        10.8%
        0.5%
        0.6%
        1556.1
        25.0%
        62.6%
        zr3616_3_R1_val_1_val_1_val_1
        11.2%
        0.5%
        0.6%
        1587.5
        25.9%
        62.8%
        zr3616_4_R1_val_1_val_1_val_1
        11.3%
        0.5%
        0.6%
        1779.3
        25.6%
        62.7%
        zr3616_5_R1_val_1_val_1_val_1
        10.7%
        0.5%
        0.6%
        1345.3
        23.1%
        62.7%
        zr3616_6_R1_val_1_val_1_val_1
        11.0%
        0.5%
        0.6%
        1613.0
        26.9%
        62.5%
        zr3616_7_R1_val_1_val_1_val_1
        11.6%
        0.5%
        0.6%
        1370.9
        23.0%
        62.6%
        zr3616_8_R1_val_1_val_1_val_1
        11.2%
        0.5%
        0.6%
        1487.2
        23.8%
        62.7%

        Bismark

        Bismark is a tool to map bisulfite converted sequence reads and determine cytosine methylation states.

        Alignment Rates

        Created with Highcharts 5.0.6# ReadsChart context menuExport PlotBismark Alignment ScoresAligned UniquelyAligned AmbiguouslyDid Not AlignNo Genomic Sequencezr3616_1_R1_val_1_val_1_val_1zr3616_2_R1_val_1_val_1_val_1zr3616_3_R1_val_1_val_1_val_1zr3616_4_R1_val_1_val_1_val_1zr3616_5_R1_val_1_val_1_val_1zr3616_6_R1_val_1_val_1_val_1zr3616_7_R1_val_1_val_1_val_1zr3616_8_R1_val_1_val_1_val_1020M40M60M80M100M120M140M160M180M200M220MCreated with MultiQC

        Deduplication

        Created with Highcharts 5.0.6% ReadsChart context menuExport PlotBismark DeduplicationDeduplicated reads (remaining)Duplicate reads (removed)zr3616_1_R1_val_1_val_1_val_1zr3616_2_R1_val_1_val_1_val_1zr3616_3_R1_val_1_val_1_val_1zr3616_4_R1_val_1_val_1_val_1zr3616_5_R1_val_1_val_1_val_1zr3616_6_R1_val_1_val_1_val_1zr3616_7_R1_val_1_val_1_val_1zr3616_8_R1_val_1_val_1_val_10102030405060708090100Created with MultiQC

        Strand Alignment

        Created with Highcharts 5.0.6% ReadsChart context menuExport PlotAlignment to Individual Bisulfite StrandsOriginal bottom strandComplementary to original bottom strandComplementary to original top strandOriginal top strandzr3616_1_R1_val_1_val_1_val_1zr3616_2_R1_val_1_val_1_val_1zr3616_3_R1_val_1_val_1_val_1zr3616_4_R1_val_1_val_1_val_1zr3616_5_R1_val_1_val_1_val_1zr3616_6_R1_val_1_val_1_val_1zr3616_7_R1_val_1_val_1_val_1zr3616_8_R1_val_1_val_1_val_10102030405060708090100Created with MultiQC

        Cytosine Methylation

        Hover over a data point for more information
        Created with Highcharts 5.0.60255075100Methylated CpG
        Created with Highcharts 5.0.60255075100Methylated CHG
        Created with Highcharts 5.0.60255075100Methylated CHH

        M-Bias

        This plot shows the average percentage methylation and coverage across reads. See the bismark user guide for more information on how these numbers are generated.

        Created with Highcharts 5.0.6Position (bp)% MethylationChart context menuExport PlotM-Bias0102030405060708090100110020406080100Created with MultiQC

        MultiQC v1.0.dev0 - Written by Phil Ewels, available on GitHub.

        This report uses HighCharts, jQuery, jQuery UI, Bootstrap, chroma.js, FileSaver.js and clipboard.js.