Loading report..

Highlight Samples

Regex mode off

    Rename Samples

    Click here for bulk input.

    Paste two columns of a tab-delimited table here (eg. from Excel).

    First column should be the old name, second column the new name.

    Regex mode off

      Show / Hide Samples

      Regex mode off

        Export Plots

        px
        px
        X

        Download the raw data used to create the plots in this report below:

        Note that additional data was saved in multiqc_data when this report was generated.

        Choose Plots

        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

        Save Settings

        You can save the toolbox settings for this report to the browser.

        Load Settings

        Choose a saved report profile from the dropdown box below:

        Tool Citations

        Please remember to cite the tools that you use in your analysis.

        To help with this, you can download publication details of the tools mentioned in this report:

        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.

        Report generated on 2024-11-09, 12:15 PST based on data in: /home/shared/8TB_HDD_01/sam/gitrepos/ceasmallr/output/02.00-bismark-bowtie2-alignment

        General Statistics

        Showing 32/32 rows and 1/2 columns.
        Sample Name% Aligned
        CF01-CM01-Zygote_R1_001
        13.2%
        CF01-CM02-Larvae_R1_001
        35.2%
        CF02-CM02-Zygote_R1_001
        13.6%
        CF03-CM03-Zygote_R1_001
        24.6%
        CF03-CM04-Larvae_R1_001
        45.6%
        CF03-CM05-Larvae_R1_001
        33.4%
        CF04-CM04-Zygote_R1_001
        25.2%
        CF05-CM02-Larvae_R1_001
        35.6%
        CF05-CM05-Zygote_R1_001
        25.2%
        CF06-CM01-Zygote_R1_001
        23.4%
        CF06-CM02-Larvae_R1_001
        21.5%
        CF07-CM02-Zygote_R1_001
        11.2%
        CF08-CM03-Zygote_R1_001
        18.6%
        CF08-CM04-Larvae_R1_001
        1.1%
        CF08-CM05-Larvae_R1_001
        2.1%
        EF01-EM01-Zygote_R1_001
        22.3%
        EF02-EM02-Zygote_R1_001
        22.9%
        EF03-EM03-Zygote_R1_001
        16.3%
        EF03-EM04-Larvae_R1_001
        30.4%
        EF03-EM05-Larvae_R1_001
        28.0%
        EF04-EM04-Zygote_R1_001
        8.5%
        EF04-EM05-Larvae_R1_001
        35.9%
        EF05-EM01-Larvae_R1_001
        28.6%
        EF05-EM05-Zygote_R1_001
        7.1%
        EF05-EM06-Larvae_R1_001
        34.0%
        EF06-EM01-Larvae_R1_001
        33.8%
        EF06-EM02-Larvae_R1_001
        34.9%
        EF06-EM06-Larvae_R1_001
        24.9%
        EF07-EM01-Zygote_R1_001
        10.2%
        EF07-EM03-Larvae_R1_001
        32.7%
        EF08-EM03-Larvae_R1_001
        37.9%
        EF08-EM04-Larvae_R1_001
        35.2%

        Bismark

        Bismark is a tool to map bisulfite converted sequence reads and determine cytosine methylation states.DOI: 10.1093/bioinformatics/btr167.

        Alignment Rates

        loading..

        Strand Alignment

        loading..

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

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