Ecosyste.ms: Repos

An open API service providing repository metadata for many open source software ecosystems.

GitHub topics: microbiome-data

Repositories

YuLab-SMU/MicrobiotaProcess

:microbe: A comprehensive R package for deep mining microbiome

Language: R - Size: 6.86 MB - Last synced: 1 day ago - Pushed: 2 days ago - Stars: 160 - Forks: 35

cafferychen777/MicrobiomeStat

Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat

Language: R - Size: 15.7 MB - Last synced: about 3 hours ago - Pushed: 1 day ago - Stars: 24 - Forks: 3

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.

Size: 176 MB - Last synced: 8 days ago - Pushed: 8 days ago - Stars: 2 - Forks: 2

KarstensLab/microshades

This repo contains the R microshades package, which contains a color blind accessible color palette with 30 unique colors and functions for applying these colors to microbiome data.

Language: R - Size: 23 MB - Last synced: 10 days ago - Pushed: 10 days ago - Stars: 46 - Forks: 10

AlexUmbach/AOViz

short-read amplicon data visualization suite

Language: R - Size: 11.5 MB - Last synced: 24 days ago - Pushed: 24 days ago - Stars: 0 - Forks: 0

liaoherui/GDmicro

GDmicro - Use GCN and Deep adaptation network to classify host disease status based on human gut microbiome data.

Language: Python - Size: 3.57 MB - Last synced: 24 days ago - Pushed: about 2 months ago - Stars: 7 - Forks: 0

stefpeschel/NetCoMi

Network construction, analysis, and comparison for microbial compositional data

Language: R - Size: 16.7 MB - Last synced: 19 days ago - Pushed: 19 days ago - Stars: 133 - Forks: 24

waldronlab/curatedMetagenomicDataAnalyses

Analyses in R and Python Using curatedMetagenomicData

Language: Python - Size: 239 MB - Last synced: 19 days ago - Pushed: over 1 year ago - Stars: 19 - Forks: 5

clemente-lab/mmeds-meta

A database for storing and analyzing omics data

Language: Python - Size: 890 MB - Last synced: about 2 months ago - Pushed: 3 months ago - Stars: 2 - Forks: 1

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.

Language: HTML - Size: 1.63 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 3 - Forks: 1

cafferychen777/MicrobiomeStat-Shiny

A Shiny interface for the MicrobiomeStat R package, designed to facilitate analysis and visualization of microbiome data.

Language: R - Size: 1.1 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 2 - Forks: 1

seandavi/MicroBioMap

Language: R - Size: 3.4 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 3 - Forks: 3

microsud/Tools-Microbiome-Analysis

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

Language: CSS - Size: 6.07 MB - Last synced: 7 months ago - Pushed: about 1 year ago - Stars: 100 - Forks: 45

jtremblay/MicrobiomeML

Machine learning for microbiome data

Language: Python - Size: 83 KB - Last synced: 9 months ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

jtremblay/microbiomeutils

Python utility to generate distance matrices, perform PCoAs and generate taxonomic summaries using simple tab-separated feature tables.

Language: Python - Size: 275 KB - Last synced: 9 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

ai4kids/t-SNE-classifier Fork of Xuxl2020/t-SNE-classifier

This is the data and R code associated with our paper "A t-SNE Based Classification Approach to Compositional Microbiome Data"

Size: 43.9 KB - Last synced: 9 months ago - Pushed: over 3 years ago - Stars: 1 - Forks: 0

vllorens/benchmark_microbiome_transformations

Code to reproduce the analyses from the paper "Benchmarking microbiome transformations favors experimental quantitative approaches to address compositionality and sampling depth biases"

Language: R - Size: 45.1 MB - Last synced: 10 months ago - Pushed: about 3 years ago - Stars: 2 - Forks: 4

harini1111/Microbiome-project

A microbiome knowledge graph was constructed using data from the Human Microbiome Project, IBD cohort. This project was done as a part of my dissertation for my MSc in Health Data Science with The University of Manchester. It was done as an internship with Zifo RnD Solutions, a leading Scientific Informatics Company.

Language: Python - Size: 49.7 MB - Last synced: 10 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0