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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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        About MultiQC

        This report was generated using MultiQC, version 1.0.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.

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        Report generated on 2018-06-14, 13:06 based on data in: /mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/HJV3MBCX2/1


        General Statistics

        Showing 30/30 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HJV3MBCX2_l01n01_bcd-1.351000000e8072
        45.1%
        36%
        2.5
        HJV3MBCX2_l01n01_bcd-2.351000000e809c
        37.1%
        38%
        3.0
        HJV3MBCX2_l01n01_bcd-3.351000000e80a9
        52.2%
        35%
        4.4
        HJV3MBCX2_l01n01_bpbcd-1.351000000e80c2
        47.6%
        36%
        2.5
        HJV3MBCX2_l01n01_bpbcd-2.351000000e80ec
        38.2%
        39%
        3.8
        HJV3MBCX2_l01n01_bpbcd-3.351000000e8107
        19.0%
        41%
        2.7
        HJV3MBCX2_l01n01_obhd-1.351000000e8171
        28.4%
        41%
        3.2
        HJV3MBCX2_l01n01_obhd-2.351000000e819b
        39.1%
        38%
        3.7
        HJV3MBCX2_l01n01_obhd-3.351000000e81b4
        20.4%
        41%
        3.1
        HJV3MBCX2_l01n01_otd-1.351000000e8114
        37.8%
        38%
        3.9
        HJV3MBCX2_l01n01_otd-2.351000000e813e
        30.7%
        37%
        1.3
        HJV3MBCX2_l01n01_otd-3.351000000e8158
        0.3%
        43%
        0.0
        HJV3MBCX2_l01n01_yw1.351000000e8015
        38.3%
        37%
        3.0
        HJV3MBCX2_l01n01_yw2.351000000e803f
        55.8%
        33%
        2.8
        HJV3MBCX2_l01n01_yw3.351000000e8059
        38.7%
        38%
        4.4
        HJV3MBCX2_l01n02_bcd-1.352000000e807f
        44.2%
        36%
        2.5
        HJV3MBCX2_l01n02_bcd-2.352000000e8099
        37.1%
        38%
        3.0
        HJV3MBCX2_l01n02_bcd-3.352000000e80a6
        52.1%
        35%
        4.4
        HJV3MBCX2_l01n02_bpbcd-1.352000000e80cf
        48.2%
        36%
        2.5
        HJV3MBCX2_l01n02_bpbcd-2.352000000e80e9
        38.1%
        39%
        3.8
        HJV3MBCX2_l01n02_bpbcd-3.352000000e8104
        19.0%
        41%
        2.7
        HJV3MBCX2_l01n02_obhd-1.352000000e817e
        28.2%
        41%
        3.2
        HJV3MBCX2_l01n02_obhd-2.352000000e8198
        38.6%
        38%
        3.7
        HJV3MBCX2_l01n02_obhd-3.352000000e81b1
        19.9%
        41%
        3.1
        HJV3MBCX2_l01n02_otd-1.352000000e8111
        37.4%
        38%
        3.9
        HJV3MBCX2_l01n02_otd-2.352000000e813b
        30.4%
        37%
        1.3
        HJV3MBCX2_l01n02_otd-3.352000000e8155
        0.3%
        42%
        0.0
        HJV3MBCX2_l01n02_yw1.352000000e8012
        38.2%
        37%
        3.0
        HJV3MBCX2_l01n02_yw2.352000000e803c
        55.7%
        33%
        2.8
        HJV3MBCX2_l01n02_yw3.352000000e8056
        38.2%
        38%
        4.4

        Lane Statistics

        Lane Statistics

        Showing 1/1 rows and 4/4 columns.
        LaneTotal # of Single-End ReadsTotal # PF ReadsUndetermined % PhiX Aligned
        1.0
        52363398
        51361078
        13.8
        8.2

        Lane 1 Demultiplexing Report

        Lane 1 Demultiplexing Report
        Total Read Count: Total number of PF (Passing Filter) reads in this library.
        Portion: The proportion of reads that represent the individual library in the entire Library Pool.
        Perfect: The percentage of reads in this library which have a barcode perfectly matching the barcode specified in TuboWeb. The remainder of reads have mismatches upto the max number of mismatches specified in TuboWeb (Allowed barcode mismatch option in your Library Pool).

        Showing 15/15 rows and 3/3 columns.
        LibraryTotal Read CountPortion (%)Perfect (%)
        yw1
        2952349
        6.7
        97.7
        bcd-2
        3012645
        6.8
        97.3
        obhd-2
        3731380
        8.4
        97.3
        bpbcd-1
        2492942
        5.6
        98.1
        obhd-1
        3218376
        7.3
        97.5
        obhd-3
        3105179
        7.0
        96.5
        otd-1
        3867552
        8.7
        89.4
        otd-3
        390.0
        0.0
        27.2
        bcd-3
        4378182
        9.9
        97.8
        bcd-1
        2525659
        5.7
        98.2
        otd-2
        1257542
        2.8
        88.9
        yw2
        2848195
        6.4
        97.7
        yw3
        4386232
        9.9
        97.8
        bpbcd-2
        3776468
        8.5
        97.5
        bpbcd-3
        2727728
        6.2
        97.4

        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

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

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        Per Sequence Quality Scores

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

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        Per Base Sequence Content

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

        Click a heatmap row to see a line plot for that dataset.

        rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

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

        loading..

        Per Base N Content

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

        loading..

        Sequence Length Distribution

        All samples have sequences of a single length (51bp).


        Sequence Duplication Levels

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

        loading..

        Overrepresented sequences

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

        loading..

        Adapter Content

        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.

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