Repositories list

• kTYPr_EcoEpidem

  Public
  Code and input files to reproduce the analyses in the manuscript "The natural diversity of E. coli capsules".

  escherichia-colik-typek-antigen+ 1

  escherichia-colik-typek-antigenktypr

  Python

  •

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 2, 2026Apr 2, 2026

• kTYPr

  Public
  A command-line tool for predicting K-antigen type classifications in Escherichia coli.

  ecoliescherichia-coliserotyping+ 4

  ecoliescherichia-coliserotypingk-typeserotypek-antigenktypr

  Python

  •

  GNU General Public License v3.0

  •00 forks•00 stars•11 issue•00 pull requests•Updated Mar 8, 2026Mar 8, 2026

• mTRAc_Manuscript

  Public
  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 31, 2025Dec 31, 2025

• reef-microbiomics-paper

  Public
  This repository contains the code associated with the reef microbiomics manuscript

  R

  •

  GNU General Public License v3.0

  •00 forks•33 stars•00 issues•00 pull requests•Updated Dec 7, 2025Dec 7, 2025

• mTRAc

  Public
  MetaTRAnscriptomic growth Classifier

  Python

  •

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Nov 22, 2025Nov 22, 2025

• omdb-download

  Public
  Python

  •

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Jul 15, 2025Jul 15, 2025

• NATIONAL_FUTURE_DAY_TEA

  Public
  Contains scripts for the kids to run at national future day.

  GNU General Public License v3.0

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 13, 2024Nov 13, 2024

• coralmicrobiome-hostbiodiversity

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 13, 2024Nov 13, 2024

• IMB_Amplicon_Pipeline

  Public
  Code from the GENERAL_METAB_ANALYSIS_PAN pipeline.

  Python

  •

  GNU General Public License v3.0

  •11 fork•22 stars•00 issues•00 pull requests•Updated Sep 3, 2024Sep 3, 2024

• mVIRs

  Public
  metagenomicsalignmentbwa+ 2

  metagenomicsalignmentbwaoprsprophages

  Python

  •

  GNU General Public License v3.0

  •44 forks•1313 stars•22 issues•00 pull requests•Updated Feb 29, 2024Feb 29, 2024

• omrgc_v2_scripts

  Public
  R

  •44 forks•1111 stars•00 issues•00 pull requests•Updated Feb 9, 2024Feb 9, 2024

• magpipe

  Public
  R

  •

  GNU General Public License v3.0

  •44 forks•2020 stars•00 issues•00 pull requests•Updated Mar 29, 2022Mar 29, 2022

• mTAGs

  Public
  metagenomicsalignmentmetabarcoding+ 2

  metagenomicsalignmentmetabarcoding16svsearch

  Python

  •

  GNU General Public License v3.0

  •22 forks•66 stars•55 issues•00 pull requests•Updated Sep 22, 2021Sep 22, 2021

• Amplicon_Recipes

  Public
  Recipes for data analysis of amplicon sequencing data

  Shell

  •33 forks•33 stars•11 issue•00 pull requests•Updated Jul 5, 2021Jul 5, 2021

• motus_course

  Public
  workshopteachingmotus

  workshopteachingmotus

  00 forks•00 stars•00 issues•00 pull requests•Updated Aug 15, 2019Aug 15, 2019

• Practical_Microbio

  Public
  R analysis following the practical course in microbiologie (Institute of Microbiology, ETH Zurich)

  00 forks•11 star•00 issues•00 pull requests•Updated Mar 8, 2019Mar 8, 2019

• SushiShinyPlot

  Public
  Package for plotting through the construction of Shiny Apps

  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 22, 2018Oct 22, 2018