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

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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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        Tool Citations

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        About MultiQC

        This report was generated using MultiQC, version 1.24.1

        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/MultiQC/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 2025-02-19, 04:34 PST based on data in: /gscratch/srlab/sr320/github/timeseries_molecular/E-Peve/output/04.3-Peve-bismark-array

        General Statistics

        Showing 36/36 rows and 1/2 columns.
        Sample Name% Aligned
        POR-216-TP1_PE_report
        63.6%
        POR-216-TP2_PE_report
        70.5%
        POR-216-TP3_PE_report
        59.7%
        POR-216-TP4_PE_report
        65.5%
        POR-236-TP1_PE_report
        59.7%
        POR-236-TP2_PE_report
        63.0%
        POR-245-TP1_PE_report
        54.1%
        POR-245-TP2_PE_report
        59.9%
        POR-245-TP3_PE_report
        68.5%
        POR-245-TP4_PE_report
        61.6%
        POR-260-TP1_PE_report
        67.8%
        POR-260-TP2_PE_report
        63.1%
        POR-260-TP3_PE_report
        60.1%
        POR-260-TP4_PE_report
        66.2%
        POR-262-TP1_PE_report
        56.6%
        POR-262-TP2_PE_report
        62.3%
        POR-262-TP4_PE_report
        61.9%
        POR-69-TP1_PE_report
        58.0%
        POR-69-TP2_PE_report
        62.7%
        POR-69-TP3_PE_report
        68.6%
        POR-69-TP4_PE_report
        63.3%
        POR-72-TP1_PE_report
        60.9%
        POR-72-TP2_PE_report
        63.2%
        POR-72-TP3_PE_report
        62.1%
        POR-72-TP4_PE_report
        58.2%
        POR-73-TP1_PE_report
        58.1%
        POR-73-TP2_PE_report
        10.4%
        POR-73-TP3_PE_report
        63.0%
        POR-74-TP1_PE_report
        58.6%
        POR-74-TP2_PE_report
        62.7%
        POR-74-TP3_PE_report
        57.1%
        POR-74-TP4_PE_report
        63.6%
        POR-83-TP1_PE_report
        67.7%
        POR-83-TP2_PE_report
        59.9%
        POR-83-TP3_PE_report
        64.8%
        POR-83-TP4_PE_report
        66.3%

        Bismark

        Version: 0.24.2

        Maps bisulfite converted sequence reads and determine cytosine methylation states.URL: http://www.bioinformatics.babraham.ac.uk/projects/bismarkDOI: 10.1093/bioinformatics/btr167

        Alignment Rates

        Created with MultiQC

        Strand Alignment

        All samples were run with --directional mode; alignments to complementary strands (CTOT, CTOB) were ignored.

        Created with MultiQC

        Software Versions

        Software Versions lists versions of software tools extracted from file contents.

        SoftwareVersion
        Bismark0.24.2

        MultiQC v1.24.1 - Written by Phil Ewels, available on GitHub.

        This report uses Plotly, jQuery, jQuery UI, Bootstrap and FileSaver.js.