microbiome-workflow
There are 20 repositories under microbiome-workflow topic.
grimmlab/MicrobiomeBestPracticeReview
Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
cafferychen777/MicrobiomeStat
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
anwarMZ/CoMW
Comparative Metatranscriptomics Workflow
biocorecrg/microbiome_procedures
Mothur procedures for 16S and ITS analysis
cafferychen777/MicrobiomeStat-Turtorial-Professional-Version
MicrobiomeStat Tutorial Repository: This is a comprehensive resource for learning how to use the MicrobiomeStat package. It provides a step-by-step guide to effectively analyze complex microbiome data.
TomC-93/Tree-Root-Microbiome-Project
The scripts contained in this repository relate directly to the work conducted by the Tree Root Microbiome Project (TRMP) led by Dr Steve Wakelin.
Brochado-Kith/microbiome_analysis
The following codes are focused on microbiome analysis, alpha, beta and relative abundance differences.
cafferychen777/MicrobiomeStat-Shiny
A Shiny interface for the MicrobiomeStat R package, designed to facilitate analysis and visualization of microbiome data.
DOieGYuan/gone
Use one command to perform genome-centric metagenomics using state-of-the-art methods
natmurad/amplicon16S
Analysis for amplicon data
ahmedmoustafa/ALS
Analysis of the gut microbiome of Amyotrophic Lateral Sclerosis (ALS) patients using the DADA2 workflow
EdwinMosesAppiah/Gastric-Microbiome-and-Gastric-Carcinogenesis
This repository contains all codes used in the "The Gastric Microbiome and Gastric Carcinogenesis: Bacterial Diversity, Co-occurrence Patterns and Predictive Models" projects
AlexUmbach/AOViz
short-read amplicon data visualization suite
drothen15/whitenose-project
Data analysis of a unique microbiome data set
hermidalc/dragonfish
A fast, efficient, and accurate functional and taxonomic meta-omic profiler built on Pufferfish and the ccdBG
jjcolgan/Bodke-Script
Modified dada2 script, used for master's thesis project. Takes fast2 files and outputs ASV table, taxonomy table, phylogenetic tree, and input files for PICRUSt2
LaurenQ2/Microbiome-Analysis-in-QIIME2
Microbiome analysis pipeline with reference tutorial. This code was written in October 2024 to process rRNA marker gene data (16S and ITS) from rhizosphere soil samples.
mdelacuba/script-repo-2024
Script repository related to the data processing and analyses of the study "Evidence of habitat specificity in sponge microbiomes from Antarctica"
mschemmel/corrnet
Scripts to convert correlation and p-value matrices to edge list and network
glickmac/Microbiome_Demo
A repository containing a demo microbiome workflow for R and Python