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README.md

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![](https://img.shields.io/badge/nextflow-20.07.1-brightgreen)
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![](https://img.shields.io/badge/uses-docker-blue.svg)
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![](https://img.shields.io/badge/licence-GPL--3.0-lightgrey.svg)
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[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.4030719.svg)](https://doi.org/10.5281/zenodo.4030719)
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![](https://github.com/replikation/docker_pipelines/workflows/Syntax_check/badge.svg)
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* sourcluster -> kmer based tree/clustering of contigs (fasta) or multiple assmeblies (via dir/)
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* sourmeta -> metagenomic WIMP determination via sourmash
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* deepHumanPathogen -> maps illumina reads against human to remove "human reads" (fastqPairs)
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* (and more)
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## Installation
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### Citation
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* please cite Nextflow if you use this and the appropriate tool that you choose to run
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> Christian Brandt. (2020, September 15). Docker pipelines: a collection of nextflow workflows related to nanopore data, taxonomy and antibiotic resistance (Version v.1.0.0). Zenodo. http://doi.org/10.5281/zenodo.4030719
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