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sanger-tol / readmapping

Nextflow DSL2 pipeline to align short and long reads to genome assembly. This workflow is part of the Tree of Life production suite.
https://pipelines.tol.sanger.ac.uk/readmapping
MIT License
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Calculate PacBio filtered data percentage #71

Open priyanka-surana opened 1 year ago

priyanka-surana commented 1 year ago

Description of feature

Calculate the percentage of PacBio read data filtered before alignment. This was flagged by Kamil.

tkchafin commented 1 month ago

I think we can do this with MultiQC, which I would like to integrate anyways as a place to collect the reports as we start integrating QC options. Most up-to-date nf-core pipelines (for example viralrecon:dev ) have multiqc integration so hopefully won't be too much work