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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 2017-09-28, 17:09 based on data in: /mnt/gencore/sites/core-fastqc.bio.nyu.edu/html/000000000-BD6BC/1

General Statistics

Showing ⁵⁴/₅₄ rows and ³/₅ columns.

Sample Name	% Dups	% GC	Length	% Failed	M Seqs
000000000-BD6BC_l01n01_59n1.3510000009e802	18.9%	48%	151 bp	33%	0.3
000000000-BD6BC_l01n01_59n2.3510000009e8cc	23.8%	47%	151 bp	42%	0.3
000000000-BD6BC_l01n01_61n1.3510000009e846	33.0%	48%	151 bp	33%	0.4
000000000-BD6BC_l01n01_61n2.3510000009e901	23.2%	47%	151 bp	33%	0.3
000000000-BD6BC_l01n01_61o2.3510000009e9a2	58.4%	49%	151 bp	42%	0.6
000000000-BD6BC_l01n01_62n1.3510000009e82c	47.3%	51%	151 bp	42%	0.3
000000000-BD6BC_l01n01_62n2.3510000009e839	34.9%	49%	151 bp	42%	0.4
000000000-BD6BC_l01n01_62o1.3510000009e97b	9.4%	46%	151 bp	25%	0.4
000000000-BD6BC_l01n01_62o2.3510000009e988	7.6%	45%	151 bp	33%	0.2
000000000-BD6BC_l01n01_63n1.3510000009e86f	67.2%	51%	151 bp	50%	0.3
000000000-BD6BC_l01n01_63n2.3510000009e87c	70.7%	50%	151 bp	50%	0.4
000000000-BD6BC_l01n01_64n1.3510000009e8a3	72.8%	51%	151 bp	50%	0.4
000000000-BD6BC_l01n01_64n2.3510000009e8bf	60.8%	51%	151 bp	50%	0.4
000000000-BD6BC_l01n01_65n1.3510000009e8e6	72.6%	53%	151 bp	42%	0.4
000000000-BD6BC_l01n01_65n2.3510000009e8d9	49.0%	50%	151 bp	42%	0.4
000000000-BD6BC_l01n01_65o1.3510000009e995	28.2%	49%	151 bp	42%	0.4
000000000-BD6BC_l01n01_66n1.3510000009e92b	72.0%	51%	151 bp	50%	0.5
000000000-BD6BC_l01n01_66n2.3510000009e91e	36.4%	46%	151 bp	33%	0.6
000000000-BD6BC_l01n01_67n1.3510000009e889	46.3%	43%	151 bp	42%	0.3
000000000-BD6BC_l01n01_67n2.3510000009e8f3	14.0%	45%	151 bp	25%	0.5
000000000-BD6BC_l01n01_human-a549.3510000009e96e	78.7%	58%	151 bp	42%	0.4
000000000-BD6BC_l01n01_mr766a.3510000009e853	94.0%	48%	151 bp	42%	2.0
000000000-BD6BC_l01n01_mr766a1-1000.3510000009e952	89.2%	49%	151 bp	42%	1.1
000000000-BD6BC_l01n01_negative.3510000009e896	82.2%	45%	151 bp	58%	0.2
000000000-BD6BC_l01n01_prvabc59b.3510000009e81f	93.9%	50%	151 bp	42%	3.0
000000000-BD6BC_l01n01_prvabc59b1-100.3510000009e945	70.4%	46%	151 bp	50%	0.1
000000000-BD6BC_l01n01_prvabc59b1-1000.3510000009e938	92.5%	51%	151 bp	42%	2.3
000000000-BD6BC_l01n02_59n1.3520000009e80f	12.7%	49%	151 bp	33%	0.3
000000000-BD6BC_l01n02_59n2.3520000009e8c9	12.1%	49%	151 bp	33%	0.3
000000000-BD6BC_l01n02_61n1.3520000009e843	19.7%	49%	151 bp	25%	0.4
000000000-BD6BC_l01n02_61n2.3520000009e90e	13.2%	49%	151 bp	33%	0.3
000000000-BD6BC_l01n02_61o2.3520000009e9af	56.1%	49%	151 bp	42%	0.6
000000000-BD6BC_l01n02_62n1.3520000009e829	44.4%	51%	151 bp	33%	0.3
000000000-BD6BC_l01n02_62n2.3520000009e836	28.3%	49%	151 bp	33%	0.4
000000000-BD6BC_l01n02_62o1.3520000009e978	7.6%	45%	151 bp	25%	0.4
000000000-BD6BC_l01n02_62o2.3520000009e985	4.4%	46%	151 bp	33%	0.2
000000000-BD6BC_l01n02_63n1.3520000009e86c	56.4%	51%	151 bp	42%	0.3
000000000-BD6BC_l01n02_63n2.3520000009e879	52.1%	51%	151 bp	50%	0.4
000000000-BD6BC_l01n02_64n1.3520000009e8a0	60.7%	52%	151 bp	42%	0.4
000000000-BD6BC_l01n02_64n2.3520000009e8bc	57.5%	52%	151 bp	42%	0.4
000000000-BD6BC_l01n02_65n1.3520000009e8e3	69.4%	53%	151 bp	50%	0.4
000000000-BD6BC_l01n02_65n2.3520000009e8d6	35.1%	51%	151 bp	33%	0.4
000000000-BD6BC_l01n02_65o1.3520000009e992	22.5%	49%	151 bp	33%	0.4
000000000-BD6BC_l01n02_66n1.3520000009e928	56.7%	52%	151 bp	42%	0.5
000000000-BD6BC_l01n02_66n2.3520000009e91b	11.5%	47%	151 bp	25%	0.6
000000000-BD6BC_l01n02_67n1.3520000009e886	6.5%	47%	151 bp	50%	0.3
000000000-BD6BC_l01n02_67n2.3520000009e8f0	6.7%	46%	151 bp	25%	0.5
000000000-BD6BC_l01n02_human-a549.3520000009e96b	66.3%	58%	151 bp	42%	0.4
000000000-BD6BC_l01n02_mr766a.3520000009e850	65.2%	49%	151 bp	33%	2.0
000000000-BD6BC_l01n02_mr766a1-1000.3520000009e95f	70.1%	50%	151 bp	33%	1.1
000000000-BD6BC_l01n02_negative.3520000009e893	9.5%	50%	151 bp	50%	0.2
000000000-BD6BC_l01n02_prvabc59b.3520000009e81c	79.1%	51%	151 bp	33%	3.0
000000000-BD6BC_l01n02_prvabc59b1-100.3520000009e942	13.2%	48%	151 bp	50%	0.1
000000000-BD6BC_l01n02_prvabc59b1-1000.3520000009e935	89.9%	51%	151 bp	33%	2.3

Uncheck the tick box to hide columns. Click and drag the handle on the left to change order.

Sort	Group	Column	Description	ID	Scale
\|\|	FastQC	% Dups	% Duplicate Reads	`percent_duplicates`	None
\|\|	FastQC	% GC	Average % GC Content	`percent_gc`	None
\|\|	FastQC	Length	Average Sequence Length (bp)	`avg_sequence_length`	None
\|\|	FastQC	% Failed	Percentage of modules failed in FastQC report (includes those not plotted here)	`percent_fails`	None
\|\|	FastQC	M Seqs	Total Sequences (millions)	`total_sequences`	read_count

Lane Statistics

Showing ¹/₁ rows and ³/₃ columns.

Lane	Total # of Single-End Reads	Total # PF Reads	Undetermined
1.0	19106484	17044213	2.52%

Uncheck the tick box to hide columns. Click and drag the handle on the left to change order.

Sort	Column	Description	ID	Scale
\|\|	Total # of Single-End Reads	Total # of Single-End Reads	`Total # of Single-End Reads`	None
\|\|	Total # PF Reads	Total # PF Reads	`Total # PF Reads`	None
\|\|	Undetermined	Undetermined	`Undetermined`	None

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 ²⁷/₂₇ rows and ³/₃ columns.

Library	Total Read Count	Portion (%)	Perfect (%)
62o1	375611	2.3	98.3
prvabc59b1-100	63136	0.4	95.5
mr766a	1997365	12.0	97.6
66n2	583423	3.5	97.1
63n2	362781	2.2	97.5
67n1	331010	2.0	96.2
64n1	358917	2.2	97.7
61o2	617708	3.7	98.0
66n1	463464	2.8	97.4
61n1	396055	2.4	97.2
mr766a1-1000	1055356	6.4	98.0
65n1	382048	2.3	96.2
59n1	258751	1.6	97.3
62n1	345755	2.1	98.2
61n2	280591	1.7	97.1
67n2	453144	2.7	96.1
59n2	258319	1.6	95.5
prvabc59b1-1000	2343374	14.1	98.0
62n2	384398	2.3	97.9
62o2	226542	1.4	97.2
negative	171735	1.0	94.5
human-a549	384591	2.3	98.0
65o1	425428	2.6	98.0
prvabc59b	2981387	17.9	98.2
63n1	310879	1.9	97.8
64n2	433518	2.6	98.0
65n2	369583	2.2	95.9

Uncheck the tick box to hide columns. Click and drag the handle on the left to change order.

Sort	Column	Description	ID	Scale
\|\|	Total Read Count	Total Read Count	`Total Read Count`	None
\|\|	Portion (%)	Portion (%)	`Portion (%)`	None
\|\|	Perfect (%)	Perfect (%)	`Perfect (%)`	None

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.

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.

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.

Per Base N Content

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

Sequence Length Distribution

All samples have sequences of a single length (151bp).

Sequence Duplication Levels

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

Overrepresented sequences

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

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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General Statistics

General Statistics: Columns

Lane Statistics

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Lane 1 Demultiplexing Report

Table Vptl: Columns

FastQC

Sequence Quality Histograms

Per Sequence Quality Scores

Per Base Sequence Content

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Per Sequence GC Content

Per Base N Content

Sequence Length Distribution

Sequence Duplication Levels

Overrepresented sequences

Adapter Content

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