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atlas

ATLAS - Three commands to start analyzing your metagenome data

bandage

a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

bioinformatics-ca.github.io

not used anymore

biostat561

Course materials for BIOST561

conda

Specifying a conda environment with `environment.yml`

dada2

Accurate sample inference from amplicon data with single nucleotide resolution

data_to_viz

Leading to the dataviz you need

divnet

diversity estimation under ecological networks

easyamplicon

Easy Amplicon data analysis pipeline

ebi-metagenomics-cwl

This repository contains the CWL description of the EBI Metagenomics pipeline

genelab_data_processing

kaiju

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database

microbiomeexplorer

The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or through a Shiny application. Written by Janina Reeder and Joseph N. Paulson.

mitiku90.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

mms

mylifeinmonths

personal-website

Code that'll help you kickstart a personal website that showcases your work as a software developer.

picrust2

Code, unit tests, and tutorials for running PICRUSt2

qiime2r

Import qiime2 artifacts to R

r-for-excel

R for Excel Users Workshop (in development)

tools-microbiome-analysis

A list of R environment based tools for microbiome data exploration, statistical analysis and visualization

topic-amplicons

A repository for the lessons and notebooks used for amplicons tutorials.

topic-functional-annotation

A repository for the lessons and notebooks used for Binder tutorials

topic-metagenomics

A repository for the lessons and notebooks used for Binder tutorials

topic-r

A repository for the lessons and notebooks used for R tutorials.

trycycler

A tool for generating consensus long-read assemblies for bacterial genomes