Repositories list

• nf_wochenende

  Public
  A nextflow version of the Wochenende reference metagenome binning and visualization pipeline

  Python

  •

  MIT License

  •2•13•14•0•Updated Oct 20, 2024Oct 20, 2024

• sc-analysis

  Public
  UNDER DEVELOPMENT: Workflows for single-cell RNA-seq analysis

  HTML

  •

  MIT License

  •0•0•0•0•Updated Sep 6, 2024Sep 6, 2024

• Heatmaps

  Public
  Heatmap script to compare taxon abundance using output from the Wochenende pipeline

  bioinformaticsseabornheatmaps

  Python

  •2•4•4•0•Updated Sep 4, 2024Sep 4, 2024

• AlethieG

  Public
  AlethieG - A metagenomic analysis tool - Adopted for Wochenende

  Java

  •

  MIT License

  •1•0•0•0•Updated Aug 22, 2023Aug 22, 2023

• WochenendeAlethieG

  Public
  Deprecated see https://github.com/MHH-RCUG/nf_wochenende : A whole Genome/Metagenome Sequencing Alignment Pipeline in Python3

  Python

  •

  MIT License

  •16•0•0•0•Updated Dec 2, 2022Dec 2, 2022

• scrnaseq

  Public
  UNDER DEVELOPMENT: Workflow for single-cell RNA-seq analysis using Seurat

  HTML

  •

  MIT License

  •15•0•0•0•Updated Sep 8, 2022Sep 8, 2022

• nf_reporter

  Public
  Integrate metagenomic reports from our Wochenende metagenomics pipeline, raspir, growth rates and other tools using Nextflow

  bioinformaticsintegrationmetagenomics

  Python

  •

  MIT License

  •0•2•10•0•Updated Aug 30, 2022Aug 30, 2022

• haybaler

  Public
  Haybaler: Collate/integrate reporting CSV or bam.txt files from the Wochenende pipeline https://github.com/MHH-RCUG/Wochenende

  Python

  •

  MIT License

  •3•5•5•0•Updated Aug 30, 2022Aug 30, 2022

• Wochenende

  Public
  Deprecated see https://github.com/MHH-RCUG/nf_wochenende : A whole Genome/Metagenome Sequencing Alignment Pipeline in Python3

  nanoporepipelineslurm+ 5alignmentconda-environmentbioinformaticsgenomicsmetagenomics

  Python

  •

  MIT License

  •16•37•23•0•Updated Aug 30, 2022Aug 30, 2022

• scrnaseq_modular_extensions

  Public
  UNDER DEVELOPMENT: Workflows for modular extensions of single-cell RNA-seq analysis performed with the scrnaseq script https://github.com/ktrns/scrnaseq

  HTML

  •0•0•0•0•Updated Mar 11, 2022Mar 11, 2022

• scrnaseq_app

  Public
  UNDER DEVELOPMENT: Shiny app for visualisation of scRNASeq data

  R

  •4•2•10•0•Updated Aug 8, 2021Aug 8, 2021

• filter-fastq

  Public
  Filter reads from a FASTQ file using a list of identifiers.

  Python

  •

  MIT License

  •5•0•0•0•Updated Feb 3, 2021Feb 3, 2021

• moosefs_ubuntu

  Public
  Install MooseFS file system on Ubuntu 16.04 via Ansible

  ansiblefilesystemubuntu1604+ 1moosefs

  MIT License

  •1•2•0•0•Updated Jul 21, 2020Jul 21, 2020