Machine learning experiment tracking and data versioning with DVC extension for VS Code

DHT11 Arduino Library: A simple and efficient library for reading temperature and humidity data from the DHT11 sensor without dependencies.

A deep learning approach that leverages language processing neural network model to accurately identify known BGCs and extrapolate novel ones.

TaxoNERD : recognizing taxonomic entities using deep models

🔬 ♌ Microbial RNA annotation

Python in high school - Algorithms and mathematics

DeepMicrobes: taxonomic classification for metagenomics with deep learning

Transfer Learning-enabled context-aware microbial source tracking

Analysis pipeline used for the analysis of army ant and myrmecophile microbiomes

fastq to polished sequenses: pipeline suitable for mixed samples and long (Nanopore) reads

R package for microbiome biomarker discovery

Do microbiome analysis with dada2 and phyloseq object

MaAsLin3: Microbiome Multivariate Association with Linear Models

ALDEx tool to examine compositional high-throughput sequence data with Welch's t-test

Tool for DNA species identification based on variation in short k-mer frequencies

Scripts used to develop and test varKoder

Study of contaminants in ethanol fermentation

microbiome R package

Repository of the integrated mouse gut metagenomic catalog

Code and analysis workflows for the manuscript on antibiotic-induced gut dysbiosis and neutrophil response in humans.

HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).

tiara – a tool for DNA sequence classification

Classifier for metagenomic sequences

More scalable dereplication for metagenome assembled genomes

Hclust2 is a handy tool for plotting heat-maps with several useful options to produce high quality figures that can be used in publication.

An R package for downstream data analysis of microbiome omics data

Various scripts used at the EnvGen group, directed towards metagenomic analysis.