MultiQC Report

Toolbox

MultiQC Toolbox

Highlight Samples

Regex mode off

Rename Samples

Click here for bulk input.

Paste two columns of a tab-delimited table here (eg. from Excel).

First column should be the old name, second column the new name.

Regex mode off

Show / Hide Samples

Regex mode off

Export Plots

Images
Data

Aspect ratio

Plot scaling

Download the raw data used to create the plots in this report below:

Format:

Note that additional data was saved in multiqc_data when this report was generated.

Choose Plots

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

Save Settings

You can save the toolbox settings for this report to the browser.

Load Settings

Choose a saved report profile from the dropdown box below:

Tool Citations

Please remember to cite the tools that you use in your analysis.

To help with this, you can download publication details of the tools mentioned in this report:

About MultiQC

This report was generated using MultiQC, version 1.15

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.

JavaScript Disabled

MultiQC reports use JavaScript for plots and toolbox functions. It looks like you have JavaScript disabled in your web browser. Please note that many of the report functions will not work as intended.

Report generated on 2024-04-04, 13:39 EDT based on data in: /scratch/stb5321/IGC-larvae/reports/larvae_RNA

General Statistics

Showing ⁴⁰/₄₀ rows and ⁵/₇ columns.

Sample Name	% Duplication	% > Q30	Mb Q30 bases	M Reads After Filtering	GC content	% PF	% Adapter
CMG0009_S1_R1_001	19.7%	91.2%	2368.0	51.9	37.8%	99.7%	0.1%
CMG0010_S2_R1_001	22.6%	91.4%	2528.8	55.4	38.6%	99.7%	0.1%
CMG0011_S3_R1_001	20.3%	91.4%	2103.9	46.0	37.1%	99.7%	0.1%
CMG0012_S4_R1_001	19.1%	91.0%	2653.7	58.4	38.2%	99.7%	0.1%
CMG0013_S5_R1_001	19.0%	91.2%	2353.4	51.6	37.8%	99.7%	0.1%
CMG0014_S6_R1_001	21.1%	91.3%	2433.2	53.3	37.7%	99.7%	0.1%
CMG0015_S7_R1_001	22.8%	91.4%	2277.1	49.9	37.8%	99.7%	0.1%
CMG0016_S8_R1_001	22.3%	91.4%	2246.0	49.2	38.0%	99.7%	0.1%
CMG0017_S9_R1_001	31.4%	91.4%	2490.0	54.5	39.3%	99.7%	0.1%
CMG0018_S10_R1_001	23.0%	91.3%	2282.2	50.0	37.7%	99.7%	0.1%
CMG0019_S11_R1_001	21.1%	91.3%	2209.7	48.4	37.8%	99.7%	0.1%
CMG0020_S12_R1_001	18.5%	90.8%	2212.9	48.7	37.8%	99.6%	0.1%
CMG0021_S13_R1_001	22.7%	91.2%	3050.9	66.9	38.2%	99.7%	0.1%
CMG0022_S14_R1_001	38.5%	91.3%	2694.7	59.0	38.8%	99.7%	0.1%
CMG0023_S15_R1_001	23.8%	91.1%	2405.6	52.8	36.1%	99.7%	0.1%
CMG0024_S16_R1_001	30.6%	91.6%	2216.1	48.4	39.2%	99.7%	0.1%
CMG0025_S17_R1_001	20.1%	91.4%	1959.4	42.9	39.1%	99.7%	0.1%
CMG0026_S18_R1_001	26.2%	91.4%	2788.0	61.0	38.7%	99.7%	0.1%
CMG0027_S19_R1_001	20.2%	91.4%	2534.5	55.5	39.0%	99.7%	0.1%
CMG0028_S20_R1_001	19.9%	91.3%	2695.5	59.0	38.1%	99.7%	0.1%
CMG0029_S21_R1_001	23.5%	91.4%	2182.6	47.8	40.5%	99.7%	0.1%
CMG0030_S22_R1_001	23.1%	91.4%	2691.9	58.9	39.6%	99.7%	0.1%
CMG0031_S23_R1_001	20.0%	91.5%	2201.3	48.2	39.7%	99.7%	0.1%
CMG0032_S24_R1_001	24.3%	91.5%	2386.3	52.2	39.6%	99.7%	0.1%
CMG0033_S25_R1_001	26.3%	91.4%	2909.9	63.7	39.7%	99.6%	0.1%
CMG0034_S26_R1_001	25.9%	91.3%	2591.0	56.8	39.9%	99.7%	0.1%
CMG0035_S27_R1_001	20.7%	91.3%	2538.2	55.6	38.5%	99.7%	0.1%
CMG0036_S28_R1_001	26.5%	91.4%	2394.3	52.4	39.4%	99.8%	0.2%
CMG0037_S29_R1_001	24.5%	91.4%	2147.2	47.0	39.3%	99.7%	0.2%
CMG0038_S30_R1_001	20.4%	91.4%	2163.7	47.3	38.0%	99.7%	0.1%
CMG0039_S31_R1_001	24.3%	91.3%	2817.7	61.7	39.2%	99.7%	0.2%
CMG0040_S32_R1_001	25.5%	91.5%	2085.6	45.6	37.4%	99.7%	0.1%
CMG0041_S33_R1_001	22.6%	91.2%	3242.0	71.1	39.3%	99.6%	0.1%
CMG0042_S34_R1_001	18.2%	91.1%	2808.9	61.7	37.9%	99.6%	0.1%
CMG0043_S35_R1_001	20.7%	91.1%	3124.2	68.6	38.1%	99.6%	0.1%
CMG0044_S36_R1_001	24.4%	91.3%	2918.0	63.9	40.6%	99.6%	0.2%
CMG0045_S37_R1_001	23.9%	91.2%	3110.4	68.2	40.5%	99.6%	0.2%
CMG0046_S38_R1_001	22.9%	91.2%	3496.0	76.7	39.8%	99.6%	0.2%
CMG0047_S39_R1_001	18.6%	91.3%	1591.1	34.9	38.9%	99.7%	0.1%
CMG0048_S40_R1_001	25.6%	91.2%	5699.0	125.0	38.8%	99.6%	0.1%

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

Sort	Group	Column	Description	ID	Scale
\|\|	fastp	% Duplication	Duplication rate before filtering	`pct_duplication`	None
\|\|	fastp	% > Q30	Percentage of reads > Q30 after filtering	`after_filtering_q30_rate`	None
\|\|	fastp	Mb Q30 bases	Bases > Q30 after filtering (millions)	`after_filtering_q30_bases`	base_count
\|\|	fastp	M Reads After Filtering	Total reads after filtering (millions)	`filtering_result_passed_filter_reads`	read_count
\|\|	fastp	GC content	GC content after filtering	`after_filtering_gc_content`	None
\|\|	fastp	% PF	Percent reads passing filter	`pct_surviving`	None
\|\|	fastp	% Adapter	Percentage adapter-trimmed reads	`pct_adapter`	None

fastp

fastp An ultra-fast all-in-one FASTQ preprocessor (QC, adapters, trimming, filtering, splitting...).DOI: 10.1093/bioinformatics/bty560.

Filtered Reads

Filtering statistics of sampled reads.

Insert Sizes

Insert size estimation of sampled reads.

Sequence Quality

Average sequencing quality over each base of all reads.

GC Content

Average GC content over each base of all reads.

N content

Average N content over each base of all reads.

Toggle navigation v1.15

MultiQC Toolbox

Apply Highlight Samples

Apply Rename Samples

Apply Show / Hide Samples

Export Plots

Choose Plots

Save Settings

Load Settings

Tool Citations

About MultiQC

General Statistics

General Statistics: Columns

fastp

Filtered Reads

Insert Sizes

Sequence Quality

GC Content

N content

v1.15

Highlight Samples

Rename Samples

Show / Hide Samples