SWittouck

SCARAP

A toolkit for prokaryotic comparative genomics

tidyamplicons

Functions to manipulate and visualize microbial community data

tidytypes

Functions to Download Type Strain Names

proclasp

Classification of prokaryotic genomes on the species level

tidyverse_workshop

Davos

My attempt at decoding the DNA of the Davos Bitcoin Challenge

lacto_species

Genome-based taxonomy of Lactobacillaceae on the species level

legen

Lactobacillales Evolutionary Genomics Pipeline

legen_pipeline

Lactobacillus Evolutionary Genomics Pipeline

tidygenomes

Functions to import and process orthogroup data in a tidy way

urt_crs

The upper respiratory tract microbiome of patients with chronic rhinosinusitis

lacto_genera

Genome-based taxonomy of Lactobacillaceae on the genus level

LactoMiner

Tool to mine Lactobacillus sequences from the SRA and classify them on the subgenus level

progenomics

Progenomics has been renamed to SCARAP

benchmark-scarap

datasets

Some small datasets

dolosigranulum_pigrum

Scripts to analyze the ecology and evolution of the species Dolosigranulum pigrum

legen_data_analysis

Lactobacillus Evolutionary Genomics Data Analysis

pangenome-toolkit

raccoon

Rapid bActerial Cross-species COmparative geNOmics

reclassify_lactos

Reclassify Lactobacillaceae 16S amplicon sequences to the new taxonomy

tidyamplicons_workshop

Workshop for working with amplicon abundance data using tidyamplicons