MultiQC_c3g is a plugin for MultiQC, providing additional tools which are specific to the GenPipes pipelines developed at the Canadian Centre for Computational Genomics (C3G). At the moment, it is used mostly for reporting for our internal run processing pipeline.
For more information about C3G, see http://www.computationalgenomics.ca/
For more information about GenPipes, see https://genpipes.readthedocs.io/en/latest/
For more information about MultiQC, see http://multiqc.info
This plugin allows C3G to write MultiQC extensions for custom pipeline reporting. It can also render: images, tables (tsv or csv), and content.
1- You will need to pip install this branch. You may modify the load_tem_scr.sh bash script above and use it to install multiqc_c3g.
2- If it does not work, contact Mareike Janiak to dicuss the tool and its uses and to decide if it goes in the main MultiQC repo or in the C3G plugin. You may also contact Paul Stretenowich for the questions related to C3G sections.
1- First git clone the repository and pip install it. Alternatively, if you are working on the abacus cluster, you can load the latest module with module load mugqic_dev/MultiQC_C3G
2- Run multiqc . to search the current directory for log files and create a report.
3- For use with the c3g run processing template and modules run multiqc . --template c3g --runprocessing --interactive
The example yamls are located in the example_yamls folder. Follow the documentation in the docs folder for more details.
Custom plugins and content by other organizations:
MultiQC and the MultiQc C3G plugin are written in python. Contributors must check the contribution guildines for C3G, as well as those for MultiQC.
Within C3G, please talk to Mareike Janiak ([email protected]), Paul Stretenowich ([email protected]) or Jean-Michel Garant ([email protected]).