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Repository multiqc
Name: multiqc
Owner: iuc
Synopsis: MultiQC aggregates 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.
Content homepage: http://multiqc.info/
Development repository: https://github.com/galaxyproject/tools-iuc/tree/master/tools/multiqc
Link to this repository: https://toolshed.g2.bx.psu.edu/view/iuc/multiqc/abfd8a6544d7
Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/multiqc
Type: unrestricted
Revision: 23:abfd8a6544d7
This revision can be installed: True
Times cloned / installed: 15200

Repository README files - may contain important installation or license information

Readme files

Galaxy MultiQC wrapper

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.

Prevent displaying MultiQC webpage as gibberish

For Galaxy to display MultiQC's HTML output properly, you need to either:

  1. Deactivate the sanitize_all_html option in galaxy.ini (sanitize_all_html = False), or
  2. Whitelist the tool in "Manage Display Whitelist" after installing

Problems with encodings

If you observe python Runtime errors because python3 is configured to use ASCII then set LC_ALL and LANG in your job_conf.xml. See also https://github.com/galaxyproject/tools-iuc/issues/2362.

Support new modules

Currently, the wrapper supports the modules for tools found on the MTS. To add new ones, you can look at the patterns at https://github.com/ewels/MultiQC/blob/master/multiqc/utils/search_patterns.yaml

Contents of this repository

Valid tools - click the name to preview the tool and use the pop-up menu to inspect all metadata
Name Description Version Minimum Galaxy Version
aggregate results from bioinformatics analyses into a single report 1.11+galaxy1 20.01

Categories
Fastq Manipulation - Tools for manipulating fastq data
Statistics - Tools for generating statistics
Visualization - Tools for visualizing data