Repositories list

• kTYPr_EcoEpidem

  Public

  SushiLab/kTYPr_EcoEpidem’s past year of commit activity
  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

  SushiLab/mTRAc’s past year of commit activity
  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

  SushiLab/omdb-download’s past year of commit activity
  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

  SushiLab/NATIONAL_FUTURE_DAY_TEA’s past year of commit activity
  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

  SushiLab/mVIRs’s past year of commit activity
  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

  SushiLab/omrgc_v2_scripts’s past year of commit activity
  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

  SushiLab/mTAGs’s past year of commit activity
  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

  SushiLab/Amplicon_Recipes’s past year of commit activity
  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

  SushiLab/motus_course’s past year of commit activity
  workshopteachingmotus

  workshopteachingmotus

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

• Practical_Microbio

  Public

  SushiLab/Practical_Microbio’s past year of commit activity
  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

  SushiLab/SushiShinyPlot’s past year of commit activity
  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