SMBGC Annotation using Neural Networks Trained on Interpro Signatures

FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )

Chat with your documents offline using AI.

18 Lessons, Get Started Building with Generative AI 🔗 https://microsoft.github.io/generative-ai-for-beginners/

The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures

Python implementation of mgpipe

tools and notes for spatial omics

Defense Against the Dark Arts

R package to send function calls as jobs on LSF, SGE, Slurm, PBS/Torque, or each via SSH

🫧🧬 From fragmented assemblies to high-quality bacteriophage genomes

A curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.

A healthy human gut genome collection

Probabilistic label transfer from bulk to single cell RNASeq datasets using TRANSACT data integration

A collaboratively written review paper on deep learning, genomics, and precision medicine

R tools for healthcare machine learning

R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.

ggplot2 version of heatmap

Collection of bioinformatics training materials

ggplot2 extension allowing for plotting various geometries as side panels using the ggplot2 API

Virus Identification By iteRative ANnoTation

Bostongene cell deconvolution algorithm from RNAseq

A curated list of awesome ggplot2 tutorials, packages etc.

Sparse Cooccurence Network Investigation for Compositional data

Multi-task and masked language model-based protein sequence embedding models.

Python package to study microbial communities using metabolic modeling.

Woltka: a versatile meta'omic data classifier

Interpretation of cell states using reference single-cell maps