What it does

MultiQC aggregates results from bioinformatics analyses across many samples into a single report. It takes results of multiple analyses and creates a report that can be viewed as a single beautiful web-page. It's a general use tool, perfect for summarizing the output from numerous bioinformatics tools.

Inputs

MultiQC takes software output summaries/logs and creates a single report from them. You need to tell the tool which software was used to generate the report. This is done using the Software name dropdown. At present the following Galaxy tools produce logs that can used with MultiQC. There are:

• Fastqc
• Cutadapt / Trim Galore!
• Tophat2
• FeatureCounts (summary file with the column header in the first line or as metadata)
• Samtools (stats, flagstat, dxstats)
• Picard (MarkDuplicatesMetrics, CollectGCBiasMetrics, CollectInsertSizeMetrics, CollectAlignmentSummaryMetrics, CollectRnaSeqMetrics)
• Bismark (Alignment report file)
• Bowtie2 (Metrics file)
• HTSeq-count ("no feature" file; although the "Assigned" metric is always 0)
• RNA STAR (Alignment from Log.final.out, Gene counts from ReadsPerGene.out.tab)

Integrated by

Cyril Monjeaud and Yvan Le Bras

`EnginesOn <http://engineson.fr/>`_ and Rennes GenOuest Bio-informatics Core Facility