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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.

         Loading report..

        Report generated on 2017-12-08, 00:12 based on data in: /mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/HJCFYBCXY/1

        General Statistics

        Showing 16/16 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HJCFYBCXY_l01n01_ah119spikea-1217.351000000ab923
        28.0%
        39%
        8.3
        HJCFYBCXY_l01n01_ah119spikeb-1217.351000000ab909
        35.3%
        39%
        8.1
        HJCFYBCXY_l01n01_ah7606hop1-1217.351000000ab8c4
        41.9%
        38%
        4.8
        HJCFYBCXY_l01n01_ah7606i3h34c-0817-1217.351000000ab831
        26.8%
        40%
        6.6
        HJCFYBCXY_l01n01_ah7606red1-1217.351000000ab8ee
        32.0%
        38%
        6.5
        HJCFYBCXY_l01n01_ah7606top2-1217.351000000ab8b7
        27.6%
        39%
        6.2
        HJCFYBCXY_l01n01_ah7797hop1-1217.351000000ab874
        24.4%
        39%
        6.2
        HJCFYBCXY_l01n01_ah7797i3h34c-0817-1217.351000000ab817
        25.5%
        40%
        7.2
        HJCFYBCXY_l01n01_ah7797red1-1217.351000000ab89e
        28.9%
        38%
        6.3
        HJCFYBCXY_l01n01_ah7797top2-0817-1217.351000000ab85b
        30.9%
        40%
        7.2
        HJCFYBCXY_l01n01_ah8584-chip_1217.351000000ab94d
        42.1%
        40%
        10.4
        HJCFYBCXY_l01n01_ah8584-inp_1217.351000000ab966
        28.2%
        40%
        7.8
        HJCFYBCXY_l01n01_ah8630a-1217.351000000ab782
        38.6%
        36%
        16.3
        HJCFYBCXY_l01n01_ah8630i-1217.351000000ab7b8
        47.8%
        38%
        10.5
        HJCFYBCXY_l01n01_ah8643a-1217.351000000ab7d2
        35.7%
        36%
        11.9
        HJCFYBCXY_l01n01_ah8643i-1217.351000000ab7fc
        33.5%
        38%
        12.3

        Lane Statistics

        Lane Statistics

        Showing 1/1 rows and 4/4 columns.
        LaneTotal # of Single-End ReadsTotal # PF ReadsUndetermined % PhiX Aligned
        1.0
        145217640
        141126926
        3.2
        3.0

        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 16/16 rows and 3/3 columns.
        LibraryTotal Read CountPortion (%)Perfect (%)
        ah8584-inp_1217
        7767647
        5.7
        98.7
        ah119spikea-1217
        8332036
        6.1
        98.2
        ah7797red1-1217
        6306490
        4.6
        98.6
        ah8584-chip_1217
        10353873
        7.6
        98.6
        ah119spikeb-1217
        8130560
        6.0
        98.3
        ah7606red1-1217
        6498882
        4.8
        98.7
        ah7606i3h34c-0817-1217
        6647743
        4.9
        98.8
        ah7797top2-0817-1217
        7195969
        5.3
        99.0
        ah8643i-1217
        12268861
        9.0
        97.7
        ah8630i-1217
        10467843
        7.7
        98.5
        ah7797hop1-1217
        6177150
        4.5
        98.6
        ah7606top2-1217
        6196638
        4.5
        98.4
        ah7797i3h34c-0817-1217
        7216459
        5.3
        98.7
        ah8643a-1217
        11943849
        8.7
        98.8
        ah7606hop1-1217
        4805277
        3.5
        98.6
        ah8630a-1217
        16279164
        11.9
        98.6

        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.

        loading..

        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.

        loading..

        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.

        loading..

        MultiQC v1.0.dev0 - Written by Phil Ewels, available on GitHub.

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