Multiqc

Generate qc report using multiqc.

Software dependencies

• multiqc ==1.2
• networkx <2.0

Example

rule multiqc:
  input:
    "fastqc/" # An input directory containing qc files
  output:
    "QC-report.html" # qc report (html)
  wrapper:
    "multiqc"

Usage

Run snakemake with

snakemake --wrapper-prefix https://github.molgen.mpg.de/raw/loosolab/snakemake-wrappers/master/

to automatically download the wrapper multiqc and include it in the snakefile.

Note that input, output and log file paths can be chosen freely. When running with

snakemake --use-conda

the software dependencies will be automatically deployed into an isolated environment before execution.

Authors

• Julian de Ruiter