millironx/taxprofiler
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Merge pull request #125 from nf-core/workflow-tube-map

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Workflow tube map
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James A. Fellows Yates 2022-09-07 12:52:38 +02:00 committed by GitHub
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@ -26,6 +26,8 @@ On release, automated continuous integration tests run the pipeline on a full-si
<!-- TODO nf-core: Fill in short bullet-pointed list of the default steps in the pipeline --> <!-- TODO nf-core: Fill in short bullet-pointed list of the default steps in the pipeline -->
![](docs/images/taxprofiler_tube.png)
1. Read QC ([`FastQC`](https://www.bioinformatics.babraham.ac.uk/projects/fastqc/)) 1. Read QC ([`FastQC`](https://www.bioinformatics.babraham.ac.uk/projects/fastqc/))
2. Performs optional read pre-processing 2. Performs optional read pre-processing
- Adapter clipping and merging (short read: [fastp](https://github.com/OpenGene/fastp), [AdapterRemoval2](https://github.com/MikkelSchubert/adapterremoval); long read: [porechop](https://github.com/rrwick/Porechop)) - Adapter clipping and merging (short read: [fastp](https://github.com/OpenGene/fastp), [AdapterRemoval2](https://github.com/MikkelSchubert/adapterremoval); long read: [porechop](https://github.com/rrwick/Porechop))

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