Description

Aggregate results from bioinformatics analyses across many samples into a single report

Input

Name (Type)
Description
Pattern

multiqc_files (file)

List of reports / files recognised by MultiQC, for example the html and zip output of FastQC

multiqc_config (file)

Optional config yml for MultiQC

*.{yml,yaml}

extra_multiqc_config (file)

Second optional config yml for MultiQC. Will override common sections in multiqc_config.

*.{yml,yaml}

Optional logo file for MultiQC

*.{png}

Output

Name (Type)
Description
Pattern

report (file)

MultiQC report file

multiqc_report.html

data (directory)

MultiQC data dir

multiqc_data

plots (file)

Plots created by MultiQC

*_data

versions (file)

File containing software versions

versions.yml
included in
airrflow ampliseq bacass bamtofastq callingcards circrna createpanelrefs createtaxdb crisprseq datasync demo demultiplex detaxizer epitopeprediction fastquorum funcscan genomeannotator genomeassembler genomeskim gwas hgtseq hicar hlatyping isoseq liverctanalysis mag magmap marsseq mcmicro metaboigniter metapep metatdenovo methylseq mhcquant molkart multiplesequencealign nanoseq nanostring nascent omicsgenetraitassociation pangenome pathogensurveillance phageannotator phaseimpute phyloplace proteinfold quantms radseq rangeland raredisease readsimulator reportho riboseq rnadnavar rnafusion rnasplice rnavar sammyseq sarek scnanoseq scrnaseq seqinspector smrnaseq spatialvi ssds taxprofiler tbanalyzer variantbenchmarking variantcatalogue viralintegration
maintainers
Github user abhi18av
Github user bunop
Github user drpatelh
Github user jfy133
get in touch
Ask a question on Slack Open an issue on GitHub

Tools

multiqc
GPL-3.0-or-later

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.

multiqc.info multiqc.info/docs