johnne Goto Github PK

2015-biogas-cebitec

Bremges et al. (2015). GigaScience, 4:33.

amplicon_benchmark

ampliseq

16S rRNA amplicon sequencing analysis workflow using QIIME2

asv-clustering

Workflow to run and evaluate clustering of ASV sequences into OTUs

atlas

ATLAS - Three commands to start analyzing your metagenome data

bioconda-recipes

Conda recipes for the bioconda channel.

biotools

Collection of scripts used for bioinformatic analyses

biovisualize

Interactive toolkit to produce high-quality graphs of results from sequencing projects

blueprint

Scripts related to the blueprint project

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.

desman

De novo Extraction of Strains from MetAgeNomes

eggnog-mapper

Fast genome-wide functional annotation through orthology assignment

eggnog-parser

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

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"

forking-workflow-exercise

Exercise to practice collaborative forking workflow.

gatb-minia-pipeline

GATB Minia assembly pipeline

gator

Conda environment and package management extension from within Jupyter

git_tutorial

gretel

An algorithm for recovering haplotypes from metagenomes

hansel

A graph-inspired data structure for determining likely chains of sequences from breadcrumbs of evidence

iba-epa-ng

iba-taxonomy

interactive

its_workflow

johnne.github.io

jupyter-book

Create an online book with Jupyter Notebooks and Jekyll

kraken

Kraken taxonomic sequence classification system

latkarlstadleva