MAGqual is a command line tool to evaluate the quality of metagenomic bins and generate recommended metadata in line with the MIMAG standards

This repo collects the list of learning online resources related to microbiome computational science and tools.

Online R learning for applied statistics

Jaeger is a quick and precise tool for detecting phages in sequence assemblies.

A package management tools for R

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

geNomad: Identification of mobile genetic elements

Metagenomic Estimation of Dietary Intake and Content.

A mathematically characterized hypothesis test for organism presence/absence in a metagenome

🌈 Interactive analysis of metagenomics data

🍦 Never use print() to debug again.

Pipeline for basic bioinformatic analysis of bacteria and study of AMR and MLST.

create meme

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

Intro to Shell for Bioinformatics - with STG examples

Supplementary files for my book, "Bioinformatics Data Skills"

talk with NCBI entrez using R

A 21 century R console