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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

T84_IL22_IFNL_Data_BoulantLab

A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

Report generated on 2021-03-08, 14:03 based on data in: /icgc/dkfzlsdf/analysis/B080/sharma/boulantLab/T84_IL22_IFNL

General Statistics

Showing ⁹⁶/₉₆ rows and ⁵/₇ columns.

Sample Name	% Assigned	M Assigned	% Dups	% GC	Length	% Failed	M Seqs
22L-12h-1_S48_R1_001	68.9%	23.6	59.8%	51%	140	18%	34.3
22L-12h-1_S48_R2_001			58.8%	51%	140	18%	34.3
22L-12h-2_S49_R1_001	67.6%	27.8	62.8%	51%	141	18%	41.2
22L-12h-2_S49_R2_001			61.2%	51%	141	18%	41.2
22L-12h-3_S50_R1_001	68.1%	18.3	56.2%	50%	142	18%	26.8
22L-12h-3_S50_R2_001			54.7%	50%	142	18%	26.8
22L-24h-1_S51_R1_001	55.2%	18.9	63.6%	52%	141	18%	34.3
22L-24h-1_S51_R2_001			62.0%	52%	141	18%	34.3
22L-24h-2_S52_R1_001	67.9%	23.4	59.7%	51%	142	18%	34.5
22L-24h-2_S52_R2_001			57.7%	51%	142	18%	34.5
22L-24h-3_S53_R1_001	52.8%	16.2	64.4%	52%	143	18%	30.6
22L-24h-3_S53_R2_001			62.6%	52%	143	18%	30.6
22L-3h-1_S42_R1_001	64.2%	19.6	58.8%	51%	143	18%	30.5
22L-3h-1_S42_R2_001			57.1%	51%	143	18%	30.5
22L-3h-2_S43_R1_001	52.5%	17.5	65.7%	53%	142	18%	33.3
22L-3h-2_S43_R2_001			63.9%	53%	142	18%	33.3
22L-3h-3_S44_R1_001	64.2%	29.8	64.7%	51%	144	18%	46.4
22L-3h-3_S44_R2_001			62.7%	51%	144	18%	46.4
22L-6h-1_S45_R1_001	58.6%	23.3	64.3%	51%	143	18%	39.7
22L-6h-1_S45_R2_001			62.6%	51%	143	18%	39.7
22L-6h-2_S46_R1_001	68.3%	20.4	59.6%	50%	143	18%	29.9
22L-6h-2_S46_R2_001			58.2%	50%	143	18%	29.9
22L-6h-3_S47_R1_001	59.4%	18.7	62.1%	51%	145	18%	31.4
22L-6h-3_S47_R2_001			60.7%	51%	145	18%	31.4
IFN-L-12h-1_S24_R1_001	58.7%	20.2	62.7%	51%	145	18%	34.4
IFN-L-12h-1_S24_R2_001			60.3%	51%	145	18%	34.4
IFN-L-12h-2_S25_R1_001	61.4%	22.4	62.6%	51%	144	18%	36.5
IFN-L-12h-2_S25_R2_001			60.9%	51%	144	18%	36.5
IFN-L-12h-3_S26_R1_001	68.0%	24.8	61.5%	51%	142	18%	36.4
IFN-L-12h-3_S26_R2_001			60.2%	51%	142	18%	36.4
IFN-L-24h-1_S27_R1_001	61.3%	21.0	63.4%	53%	140	18%	34.2
IFN-L-24h-1_S27_R2_001			62.0%	53%	140	18%	34.2
IFN-L-24h-2_S28_R1_001	65.4%	25.3	61.8%	51%	142	18%	38.7
IFN-L-24h-2_S28_R2_001			60.2%	51%	143	18%	38.7
IFN-L-24h-3_S29_R1_001	51.6%	22.0	67.5%	52%	144	18%	42.6
IFN-L-24h-3_S29_R2_001			65.1%	52%	144	18%	42.6
IFN-L-3h-1_S18_R1_001	61.2%	20.8	61.7%	51%	144	18%	34.0
IFN-L-3h-1_S18_R2_001			60.0%	51%	144	18%	34.0
IFN-L-3h-2_S19_R1_001	51.5%	31.9	70.9%	52%	143	18%	62.0
IFN-L-3h-2_S19_R2_001			68.7%	53%	143	18%	62.0
IFN-L-3h-3_S20_R1_001	59.3%	21.9	63.2%	52%	144	18%	36.9
IFN-L-3h-3_S20_R2_001			61.2%	52%	144	18%	36.9
IFN-L-6h-1_S21_R1_001	50.1%	49.5	74.9%	53%	140	18%	98.8
IFN-L-6h-1_S21_R2_001			73.5%	53%	140	18%	98.8
IFN-L-6h-2_S22_R1_001	65.6%	30.7	63.4%	50%	144	18%	46.9
IFN-L-6h-2_S22_R2_001			61.8%	50%	144	18%	46.9
IFN-L-6h-3_S23_R1_001	58.9%	23.7	64.7%	51%	144	18%	40.3
IFN-L-6h-3_S23_R2_001			62.5%	51%	144	18%	40.3
IL-22-12h-1_S36_R1_001	62.9%	21.1	61.6%	51%	143	18%	33.5
IL-22-12h-1_S36_R2_001			59.6%	51%	143	18%	33.5
IL-22-12h-2_S37_R1_001	54.7%	19.2	64.6%	52%	143	18%	35.2
IL-22-12h-2_S37_R2_001			62.9%	52%	143	18%	35.2
IL-22-12h-3_S38_R1_001	64.1%	23.7	61.6%	51%	143	18%	37.0
IL-22-12h-3_S38_R2_001			59.8%	51%	143	18%	37.0
IL-22-24h-1_S39_R1_001	63.8%	21.4	61.5%	51%	143	18%	33.5
IL-22-24h-1_S39_R2_001			60.1%	51%	143	18%	33.5
IL-22-24h-2_S40_R1_001	66.0%	20.8	59.7%	51%	143	18%	31.5
IL-22-24h-2_S40_R2_001			57.2%	51%	143	18%	31.5
IL-22-24h-3_S41_R1_001	67.0%	25.5	67.1%	52%	143	18%	38.0
IL-22-24h-3_S41_R2_001			65.4%	52%	143	18%	38.0
IL-22-3h-1_S30_R1_001	66.3%	28.5	63.6%	51%	138	18%	42.9
IL-22-3h-1_S30_R2_001			62.1%	51%	138	18%	42.9
IL-22-3h-2_S31_R1_001	51.4%	16.0	65.4%	52%	143	18%	31.0
IL-22-3h-2_S31_R2_001			63.5%	52%	143	18%	31.0
IL-22-3h-3_S32_R1_001	64.5%	21.6	61.6%	51%	141	18%	33.5
IL-22-3h-3_S32_R2_001			59.6%	51%	141	18%	33.5
IL-22-6h-1_S33_R1_001	59.8%	17.0	62.0%	51%	144	18%	28.5
IL-22-6h-1_S33_R2_001			60.2%	51%	144	18%	28.5
IL-22-6h-2_S34_R1_001	63.6%	16.5	56.1%	51%	142	18%	25.9
IL-22-6h-2_S34_R2_001			54.1%	51%	142	18%	25.9
IL-22-6h-3_S35_R1_001	47.8%	21.9	67.7%	52%	141	27%	45.7
IL-22-6h-3_S35_R2_001			66.0%	52%	141	18%	45.7
Mock-12h-1_S12_R1_001	56.4%	21.9	64.7%	52%	143	18%	38.9
Mock-12h-1_S12_R2_001			63.0%	52%	144	18%	38.9
Mock-12h-4_S13_R1_001	57.3%	19.9	64.1%	52%	142	18%	34.8
Mock-12h-4_S13_R2_001			62.1%	52%	142	18%	34.8
Mock-12h-6_S14_R1_001	66.2%	31.1	65.2%	52%	138	18%	47.0
Mock-12h-6_S14_R2_001			63.7%	52%	138	18%	47.0
Mock-24h-1_S15_R1_001	51.4%	12.5	63.6%	53%	144	18%	24.3
Mock-24h-1_S15_R2_001			61.5%	53%	144	18%	24.3
Mock-24h-2_S16_R1_001	64.3%	22.2	61.4%	52%	141	18%	34.5
Mock-24h-2_S16_R2_001			60.0%	52%	141	18%	34.5
Mock-24h-3_S17_R1_001	58.1%	17.0	62.8%	53%	143	18%	29.3
Mock-24h-3_S17_R2_001			61.3%	53%	143	18%	29.3
Mock-3h-1_S6_R1_001	61.3%	22.7	64.9%	52%	138	18%	37.1
Mock-3h-1_S6_R2_001			63.3%	52%	139	18%	37.1
Mock-3h-2_S7_R1_001	55.3%	21.5	65.5%	53%	142	18%	38.8
Mock-3h-2_S7_R2_001			63.9%	53%	143	18%	38.8
Mock-3h-3_S8_R1_001	54.6%	16.0	64.2%	53%	144	18%	29.3
Mock-3h-3_S8_R2_001			62.6%	53%	144	18%	29.3
Mock-6h-1_S9_R1_001	53.5%	36.5	70.6%	53%	141	18%	68.3
Mock-6h-1_S9_R2_001			68.8%	53%	142	18%	68.3
Mock-6h-2_S10_R1_001	58.0%	30.6	67.0%	52%	143	18%	52.8
Mock-6h-2_S10_R2_001			65.1%	52%	143	18%	52.8
Mock-6h-4_S11_R1_001	57.2%	32.6	67.9%	52%	142	18%	57.1
Mock-6h-4_S11_R2_001			64.5%	52%	143	18%	57.1

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

Sort	Group	Column	Description	ID	Scale
\|\|	featureCounts	% Assigned	% Assigned reads	`percent_assigned`	None
\|\|	featureCounts	M Assigned	Assigned reads (millions)	`Assigned`	read_count
\|\|	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

featureCounts

Subread featureCounts is a highly efficient general-purpose read summarization program that counts mapped reads for genomic features such as genes, exons, promoter, gene bodies, genomic bins and chromosomal locations.

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

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

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.

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

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.

No samples found with any adapter contamination > 0.1%

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T84_IL22_IFNL_Data_BoulantLab

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T84_IL22_IFNL_Data_BoulantLab

General Statistics

General Statistics: Columns

featureCounts

FastQC

Sequence Quality Histograms

Per Sequence Quality Scores

Per Base Sequence Content

rollover for sample name

Per Sequence GC Content

Per Base N Content

Sequence Length Distribution

Sequence Duplication Levels

Overrepresented sequences

Adapter Content

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