Aggregate results from bioinformatics analyses across many samples into a single report
MultiQC searches a given directory for analysis logs and compiles a HTML report. It's a general use tool, perfect for summarising the output from numerous bioinformatics tools.
Ever spent ages collecting reports and wading through log file output?
Here's the answer to your frustrations...
MultiQC collects numerical stats from each module at the top the report, so that you can track how your data behaves as it proceeds through your analysis.View Example Report
Visualizing your samples together allows detailed comparison, not possible by scanning one report after another.
MultiQC comes supports many common bioinformatics tools out of the box. If you're missing something, just create an issue on GitHub to request it - if you have an example log file it's usually pretty fast.View available Modules
Want to use this to do something fancy? MultiQC is structured to allow easy extension and customisation with plugin hooks, a submodule framework and simple templating. Everything is well documented, with step by step instructions for writing your new tool.Read the docs
Amazingly, https://t.co/QTDfCMVG3B just works. Ran `multiqc .` in a dir with bunch of STAR, featurecounts, fastqc results. Worked 1st time.— Stephen Turner (@genetics_blog) May 31, 2016
MultiQC == Awesome tool! Wish all bioinfo software were as documented, modular and useful as this! https://t.co/OiDAzlNqxS— André Rendeiro (@afrendeiro) February 26, 2016
@tallphil this such a great difference to the visualization of fastqc reports individually! :)— Olalla Lorenzo (@o_olalla) June 21, 2016
I'm continuously impressed by how slick multiqc from @tallphil is. It makes my life so much easier.— Devon Ryan (@dpryan79) 30 August 2016
Tool/Technique Tuesday. Quality controls, sanity checks are very important to ensure one does not enter a never-ending rabbit hole. A great tool that we use all the time is #MultiQC from @scilifelab a tool that scrapes logs for metrics and visualisation. https://t.co/0nSqslJz1b pic.twitter.com/3p6vqJINAj— MonashBioinformatics (@MonashBioinfo) September 23, 2019
To install MultiQC, simply run
pip install multiqc on the command line.
If you use conda, you can run
conda install -c bioconda multiqc instead.
See the installation instructions for more help.