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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 1.8

        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 2020-03-23, 10:52 based on data in: /gscratch/scrubbed/sr320/031520-TG-100g/Mcap_tg

        General Statistics

        Showing 9/9 rows and 6/8 columns.
        Sample Name% mCpG% mCHG% mCHHM C's% Dups% Aligned
        Meth10_R1_001_val_1
        12.2%
        1.4%
        1.3%
        377.8
        61.9%
        39.6%
        Meth11_R1_001_val_1
        13.1%
        1.2%
        1.2%
        377.8
        47.1%
        41.0%
        Meth12_R1_001_val_1
        13.3%
        1.4%
        1.3%
        586.0
        50.9%
        39.8%
        Meth13_R1_001_val_1
        4.4%
        0.7%
        0.6%
        1822.3
        54.7%
        Meth14_R1_001_val_1
        4.1%
        0.6%
        0.6%
        1063.3
        52.7%
        Meth15_R1_001_val_1
        4.4%
        1.0%
        0.9%
        1737.9
        51.7%
        Meth16_R1_001_val_1
        16.4%
        1.6%
        1.6%
        147.8
        71.2%
        24.2%
        Meth17_R1_001_val_1
        14.5%
        1.5%
        1.8%
        96.2
        81.4%
        23.4%
        Meth18_R1_001_val_1
        14.0%
        1.5%
        1.7%
        79.4
        80.0%
        22.7%

        Bismark

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

        Alignment Rates

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        Deduplication

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        Strand Alignment

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        Cytosine Methylation

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        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.

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        MultiQC v1.8 - Written by Phil Ewels, available on GitHub.

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