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Add ToulligQC for raw read QC #285

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Salome-Brunon opened this issue Nov 18, 2024 · 0 comments
Open

Add ToulligQC for raw read QC #285

Salome-Brunon opened this issue Nov 18, 2024 · 0 comments
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enhancement New feature or request

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@Salome-Brunon
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Description of feature

Hello,
We have developed a QC tool named ToulligQC (https://nf-co.re/modules/toulligqc), dedicated to nanopore reads and it has recently been added to the nf-core modules library as well as a nanopore single-cell pipeline (https://nf-co.re/scnanoseq/1.0.0/).
Looking at your pipeline, our tool would be a good addition to do the raw read QC step.
The advantages of our tool are the following:

  • summary of runs presented as HTML report, with information about the sequencing run, basecalling and demultiplexing steps => read count and length distributions, homogeneity of the run, location of potential flow cell spatial biases, statistics about pass and fail reads
  • option to split QC by barcoded samples

Here is an example of a ToulligQC report.
I am happy to work on the implementation of ToulligQC and submit a PR, but I wanted to confirm your interest first.
Please feel free to reach out if you have any questions or require further information

@Salome-Brunon Salome-Brunon added the enhancement New feature or request label Nov 18, 2024
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