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@IKIM-Essen Institute for AI in Medicine (IKIM)

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    22 repositories

    • ikim-website

      Public
      ikim-website
      TeX
      •
      MIT License
      •3•0•0•0•Updated Jan 23, 2025Jan 23, 2025

    • RiboSnake

      Public
      16S pipeline using qiime2 created with snakemake
      Python
      •
      MIT License
      •1•11•6•2•Updated Jan 22, 2025Jan 22, 2025

    • uncovar

      Public
      Transparent and robust SARS-CoV-2 variant calling and lineage assignment with comprehensive reporting.
      variant-callingsars-cov-2lineage-assignment
      Python
      •
      BSD 2-Clause "Simplified" License
      •8•22•46•14•Updated Jan 21, 2025Jan 21, 2025

    • ERMA

      Public
      ERMA - epicPCR Resistome-Microbiome Analyzer
      Python
      •0•0•0•1•Updated Jan 20, 2025Jan 20, 2025

    • HyDRA

      Public
      Python
      •0•1•0•0•Updated Jan 16, 2025Jan 16, 2025

    • EUCAST_MIC_Extractor

      Public
      Python Project that extracts the MIC values from the EUXAST xlsx files.
      Python
      •
      MIT License
      •0•1•0•0•Updated Jan 9, 2025Jan 9, 2025

    • metagenomics_res

      Public
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•1•4•1•Updated Jan 7, 2025Jan 7, 2025

    • Microbiome_TimeSeries

      Public
      Machine learning models for time series prediction of microbial abundance
      Python
      •0•0•0•1•Updated Dec 12, 2024Dec 12, 2024

    • EMCP-slurm

      Public
      Shell
      •
      BSD 2-Clause "Simplified" License
      •0•0•0•1•Updated Dec 9, 2024Dec 9, 2024

    • EMCP-config

      Public
      IaC configuration of the Essen Medical Computing Platform (EMCP)
      Jinja
      •
      BSD 2-Clause "Simplified" License
      •4•0•4•4•Updated Dec 9, 2024Dec 9, 2024

    • ClusterDocs

      Public
      BSD 2-Clause "Simplified" License
      •8•5•1•0•Updated Dec 2, 2024Dec 2, 2024

    • QC_pre_NextSeq

      Public
      Workflow for short quality control of MiSeq sequencing data before sequencing on high throughput devices (e.g. NextSeq)
      Python
      •
      BSD 2-Clause "Simplified" License
      •0•0•2•2•Updated Aug 5, 2024Aug 5, 2024

    • master-project-seminar-202324

      Public
      Data Science in Bioinformatics WS2023/24
      Creative Commons Zero v1.0 Universal
      •0•1•0•0•Updated Feb 16, 2024Feb 16, 2024

    • runner-ansible

      Public
      Building & publishing the image used for cluster administration
      Dockerfile
      •0•0•0•0•Updated Jul 17, 2023Jul 17, 2023

    • MSA-phylogeny

      Public
      Python
      •
      MIT License
      •0•0•0•0•Updated May 16, 2023May 16, 2023

    • ResMAG

      Public
      Snakemake workflow for metagenomic assembly, binning and finding of antibiotic resistance
      Python
      •
      MIT License
      •0•0•0•0•Updated Mar 17, 2023Mar 17, 2023

    • master-project-seminar

      Public
      DataScience in Bioinformatics WiSe 2022/23
      Creative Commons Zero v1.0 Universal
      •2•6•0•0•Updated Feb 2, 2023Feb 2, 2023

    • kubespray

      Public
      Deploy a Production Ready Kubernetes Cluster
      Jinja
      •
      Apache License 2.0
      •6.5k•0•0•0•Updated Jan 17, 2023Jan 17, 2023

    • sars-cov-2-workflow-comparison

      Public
      A collection of workflows for analyzing the SARS-CoV-2 genome.
      workflowanalyticscomparisonsars-cov-2
      13•8•6•2•Updated Oct 3, 2022Oct 3, 2022

    • gut-brain-modules

      Public
      Python
      •
      MIT License
      •1•0•0•3•Updated Apr 22, 2022Apr 22, 2022

    • tech-talks

      Public
      Discussion of patterns for using the IKIM machines
      Shell
      •
      Apache License 2.0
      •0•3•0•0•Updated Jun 8, 2021Jun 8, 2021

    • kleesieklab

      Public
      Kleesiek lab webpage
      0•0•0•0•Updated Aug 13, 2020Aug 13, 2020