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kircherlab / MPRAsnakeflow

new implementation of MPRAsnakeflow fork of MPRAflow
MIT License
3 stars 5 forks source link

feat!: QC report #99

Closed bioinformaticsguy closed 3 months ago

bioinformaticsguy commented 7 months ago

I have implemented the qc_report rule.

Once the workflow finishes the qc_report can be generated by calling a similar command.

snakemake -c 11 --use-conda --snakefile ../../workflow/Snakefile --configfile config.yml --notemp -p qc_report

Do not forget to mention the report rule name qc_report at the end of the snakemake call.

I have only tested this qc_report on in the count workflow. There are potential bugs that will be fixed in future pull requests. 

bioinformaticsguy commented 6 months ago

I have checked it on the combined workflow and the count workflow as well. It generates the report for multiple experiments. Kindly check and merge the pull request.

P.S: You might find a conflict with the config file, that was accidentally committed at some point. We can totally ignore the conflicts in the config file.

visze commented 5 months ago

@bioinformaticsguy What is the status here? Shoudl I check and merge?

bioinformaticsguy commented 5 months ago

It would be great if you can test it locally and merge!