johnne

eggnog-parser

Utility to handle output from eggnog-mapper. Includes downloading KEGG information files, linking Kegg orthologs to enzymes and pathways and quantifies annotations.

ASV-clustering

Workflow to run and evaluate clustering of ASV sequences into OTUs

fae

Code used to plot results for article in project "Improving digestibility of silage fibre by use of feruloly esterase producing microorganisms as a silage additive"

pensioner

transporters

Analysis of transporters in genomes and metagenomes

bioconda-recipes

Conda recipes for the bioconda channel.

amplicon_benchmark

ampliseq

16S rRNA amplicon sequencing analysis workflow using QIIME2

atlas

ATLAS - Three commands to start analyzing your metagenome data

clean_asv_data

Code to clean up ASV clustering results and generate stats

climate

deepbiosphere_binning_eval

A repository hosting results and figures for evaluating metagenomic binners on data used in Mehrshad et al.

gator

Conda environment and package management extension from within Jupyter

git_tutorial

IBA-epa-ng

interactive

its_workflow

jupyter-book

Create an online book with Jupyter Notebooks and Jekyll

LatKarlstadLeva

map_metaT

Snakemake workflow to map and quantify metatranscriptomic data using a metagenome reference

MTX_model

R package for differential expression analysis in metatranscriptomics

nbis-course-quarto

NBIS course quarto template

nbis-meta

A snakemake workflow for metagenomic projects

numts

partier

A shiny app to view the support in Swedish parliament for 18 environmental proposals.

PLUSplacer-taxtastic

RaukR

Course and presentation R Markdown templates for RaukR course

slurm

Cookiecutter for snakemake slurm profile

st_rRNA

testrepo