SWittouck

paraBench

benchmark dataset for orthologous groups

uniortho

Pipeline to make strain specific primers for your strain of interest based on unique orthogroups

tidytacos

Functions to manipulate and visualize microbial community data

strain-specific-primers

pipeline to make strain specific primers for your strain of interest

Bioinformatics-training-collection

A collection of resources for learning about tools and programming languages related to Bioinformatics

nf-metagenome-seq-kraken-bracken

Nextflow pipeline for metagenome sequencing reads

multidiffabundance

A toolkit for the testing of differential abundance with many different tools

LAMB_Genome_Pipeline

LAMB Genome analysis pipeline

Thesis

pydyamplicons

Python wrapper for tidyamplicons

dada2

Accurate sample inference from amplicon data with single nucleotide resolution

isala_pilot

Data-analysis of the Isala pilot study

NGmerge

Merging paired-end reads and removing adapters

Bioinformatics-thesis-project

This research project is based on comparative genomics and phylogenetics analysis. These codes were used to analyze genomic data and show evidence of co-evolution between Lactobacillus bacteria and bacteriophages.

datapasta

On top of spaghetti, all covered in cheese....

MMseqs2

MMseqs2: ultra fast and sensitive search and clustering suite

lactotax

Tool to help users make sense of the new Lactobacillus taxonomy

coinfinder

A tool for the identification of coincident (associating and dissociating) genes in pangenomes.

graftM

GraftM - Rapid community profiles from metagenomes

bioinformatics-one-liners

Bioinformatics one liners from Ming Tang

ggpubr

'ggplot2' Based Publication Ready Plots

git-gud

A reveal.js presentation about the internals of git, available at: https://pmoris.github.io/git-gud/

bbplot

R package that helps create and export ggplot2 charts in the style used by the BBC News data team

Roary

Rapid large-scale prokaryote pan genome analysis

OrthoFinder

Phylogenetic orthology inference for comparative genomics

raxml-ng

RAxML Next Generation: faster, easier-to-use and more flexible

FastANI

Fast Whole-Genome Similarity (ANI) Estimation

lactobot

Raspberry Pi powered bot tweeting about the amount of Lactobacillus genomes on NCBI. Designed and maintained by @swuyts

Davos

My attempt at decoding the DNA of the Davos Bitcoin Challenge