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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 1.14

        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.

        General Statistics

        Showing 12/12 rows and 6/6 columns.
        Sample Name% AssignedM Assigned% rRNA% mRNA% AlignedM Aligned
        19072XR-10-01_S0_L001
        0.0%
        96.6%
        89.7%
        20.1
        19072XR-10-01_S0_L001_HTseq-reverse
        86.4%
        37.3
        19072XR-10-02_S149_L006
        0.0%
        96.5%
        87.1%
        23.7
        19072XR-10-02_S149_L006_HTseq-reverse
        83.7%
        43.7
        19072XR-10-03_S0_L001
        0.0%
        96.9%
        88.8%
        21.1
        19072XR-10-03_S0_L001_HTseq-reverse
        85.4%
        39.2
        19072XR-10-04_S151_L006
        0.0%
        96.7%
        86.6%
        18.1
        19072XR-10-04_S151_L006_HTseq-reverse
        83.1%
        33.4
        19072XR-10-05_S152_L006
        0.0%
        96.7%
        87.6%
        18.4
        19072XR-10-05_S152_L006_HTseq-reverse
        84.2%
        34.0
        19072XR-10-06_S153_L006
        0.0%
        96.6%
        86.8%
        22.8
        19072XR-10-06_S153_L006_HTseq-reverse
        83.2%
        42.0

        HTSeq Count

        HTSeq Count is part of the HTSeq Python package - it takes a file with aligned sequencing reads, plus a list of genomic features and counts how many reads map to each feature.DOI: 10.1093/bioinformatics/btu638.

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        Picard

        Picard is a set of Java command line tools for manipulating high-throughput sequencing data.

        RnaSeqMetrics Assignment

        Number of bases in primary alignments that align to regions in the reference genome.

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        RnaSeqMetrics Strand Mapping

        Number of aligned reads that map to the correct strand.

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        Gene Coverage

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        STAR

        STAR is an ultrafast universal RNA-seq aligner.DOI: 10.1093/bioinformatics/bts635.

        Alignment Scores

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        MultiQC v1.14 - Written by Phil Ewels, available on GitHub.

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