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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 1.6.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 2018-05-07, 07:28 based on data in: /home/sam/analyses/20180503_trimgalore/20180503_trim_fastqc

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

        General Statistics

        Showing 26/26 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        1_ATCACG_L001_R1_001
        21.2%
        24%
        9.2
        2_CGATGT_L001_R1_001
        22.6%
        24%
        11.7
        3_TTAGGC_L001_R1_001
        23.2%
        24%
        11.6
        4_TGACCA_L001_R1_001
        22.0%
        24%
        11.4
        5_ACAGTG_L001_R1_001
        22.7%
        24%
        12.2
        6_GCCAAT_L001_R1_001
        22.3%
        24%
        12.2
        7_CAGATC_L001_R1_001
        20.7%
        23%
        10.1
        8_ACTTGA_L001_R1_001
        23.5%
        23%
        13.9
        zr1394_10_s456
        48.8%
        29%
        78.2
        zr1394_11_s456
        37.9%
        28%
        54.5
        zr1394_12_s456
        26.9%
        25%
        59.5
        zr1394_13_s456
        33.2%
        27%
        64.4
        zr1394_14_s456
        36.2%
        26%
        87.8
        zr1394_15_s456
        36.9%
        28%
        68.0
        zr1394_16_s456
        33.5%
        27%
        74.5
        zr1394_17_s456
        32.2%
        28%
        42.1
        zr1394_18_s456
        29.0%
        26%
        55.0
        zr1394_1_s456
        26.3%
        26%
        46.8
        zr1394_2_s456
        26.6%
        26%
        46.1
        zr1394_3_s456
        26.0%
        26%
        48.4
        zr1394_4_s456
        27.5%
        27%
        44.9
        zr1394_5_s456
        23.0%
        26%
        47.4
        zr1394_6_s456
        22.3%
        25%
        46.5
        zr1394_7_s456
        26.5%
        27%
        49.7
        zr1394_8_s456
        26.5%
        27%
        38.7
        zr1394_9_s456
        29.9%
        25%
        77.4

        FastQC

        FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Quality Histograms
        26
        0
        0

        The mean quality value across each base position in the read. See the FastQC help.

        Created with Highcharts 5.0.6Position (bp)Phred ScoreChart context menuExport PlotFastQC: Mean Quality Scores246810121416182022242628300510152025303540Created with MultiQC

        Per Sequence Quality Scores
        26
        0
        0

        The number of reads with average quality scores. Shows if a subset of reads has poor quality. See the FastQC help.

        Created with Highcharts 5.0.6Mean Sequence Quality (Phred Score)CountChart context menuExport PlotFastQC: Per Sequence Quality Scores0510152025303540050000001000000015000000200000002500000030000000Created with MultiQC

        Per Base Sequence Content
        18
        0
        8

        The proportion of each base position for which each of the four normal DNA bases has been called. See the FastQC help.

        Click a sample row to see a line plot for that dataset.
        Rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content
        26
        0
        0

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content. See the FastQC help.

        Created with Highcharts 5.0.6% GCPercentageChart context menuExport PlotFastQC: Per Sequence GC Content0102030405060708090100012345Created with MultiQC

        Per Base N Content
        26
        0
        0

        The percentage of base calls at each position for which an N was called. See the FastQC help.

        Created with Highcharts 5.0.6Position in Read (bp)Percentage N-CountChart context menuExport PlotFastQC: Per Base N Content0246810121416182022242628300123456Created with MultiQC

        Sequence Length Distribution
        0
        26
        0

        The distribution of fragment sizes (read lengths) found. See the FastQC help.

        Created with Highcharts 5.0.6Sequence Length (bp)Read CountChart context menuExport PlotFastQC: Sequence Length Distribution2021222324252627282930310500000010000000150000002000000025000000300000003500000040000000Created with MultiQC

        Sequence Duplication Levels
        19
        7
        0

        The relative level of duplication found for every sequence. See the FastQC help.

        Created with Highcharts 5.0.6Sequence Duplication Level% of LibraryChart context menuExport PlotFastQC: Sequence Duplication Levels123456789>10>50>100>500>1k>5k>10k+020406080100Created with MultiQC

        Overrepresented sequences
        26
        0
        0

        The total amount of overrepresented sequences found in each library. See the FastQC help for further information.

        26 samples had less than 1% of reads made up of overrepresented sequences

        Adapter Content
        26
        0
        0

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. See the FastQC help. Only samples with ≥ 0.1% adapter contamination are shown.

        No samples found with any adapter contamination > 0.1%