| name | multiqc |
| description | MultiQC — aggregate bioinformatics QC logs into a single interactive HTML report (FastQC, fastp, Bowtie2/BWA, Samtools, QUAST, …). Use after QC/mapping steps to audit libraries before biological statistics. Upstream: https://github.com/MultiQC/MultiQC. Route via research-analysis / setup.
|
| license | MIT |
| category | utilities |
| tags | ["MultiQC","QC","report","FastQC","research-analysis"] |
| upstream | https://github.com/MultiQC/MultiQC |
| stage | qc |
MultiQC
Upstream: MultiQC/MultiQC ·
https://multiqc.info/
Citation
Ewels, P., Magnusson, M., Lundin, S. & Käller, M. MultiQC: summarize analysis
results for multiple tools and samples in a single report. Bioinformatics
32, 3047–3048 (2016). https://doi.org/10.1093/bioinformatics/btw354
See also docs/references.md.
Analytical thinking
MultiQC is for technical QC dashboards, not alpha diversity or DA tests.
Point it at directories of tool logs after fastqc / fastp / mapping / QUAST.
Pin MultiQC version; module support varies by log format.
How to run
pip install multiqc
multiqc qc_logs/ -o multiqc_report
Decision tree
Need aggregated QC HTML?
├─ Yes → multiqc
├─ Biological diversity / DA → research-analysis → microeco / maaslin2
└─ Per-tool QC only → fastqc / fastp / quast skills
Related skills
research-analysis · fastqc · fastp · quast · samtools · setup ·
visualization · tool-selection
