opencobra/cobratoolbox

The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:

Language: MATLAB - Size: 1.02 GB - Last synced: 14 days ago - Pushed: 15 days ago - Stars: 237 - Forks: 303

qiita-spots/qiita

Qiita - A multi-omics databasing effort

Language: Python - Size: 45.2 MB - Last synced: 8 days ago - Pushed: 9 days ago - Stars: 118 - Forks: 79

microbiome/microbiome

microbiome R package

Language: R - Size: 392 MB - Last synced: 19 days ago - Pushed: 10 months ago - Stars: 273 - Forks: 56

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

grimmlab/MicrobiomeBestPracticeReview

Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing

Language: Shell - Size: 13 MB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 101 - Forks: 36

YuLab-SMU/MicrobiotaProcess

:microbe: A comprehensive R package for deep mining microbiome

Language: R - Size: 6.86 MB - Last synced: about 24 hours ago - Pushed: 2 days ago - Stars: 160 - Forks: 35

zoecastillo/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.

Language: R - Size: 1.82 MB - Last synced: 7 months ago - Pushed: over 1 year ago - Stars: 66 - Forks: 21

Russel88/MicEco

Various functions for analysis of microbial community data

Language: R - Size: 873 KB - Last synced: 7 months ago - Pushed: over 1 year ago - Stars: 36 - Forks: 11

itsmisterbrown/microfiltR

accessory functions for processing microbial community data

Language: R - Size: 3.84 MB - Last synced: 7 months ago - Pushed: over 1 year ago - Stars: 12 - Forks: 11

GPZ-Bioinfo/tmap

topological data analysis of population-scale microbiomes

Language: Python - Size: 11.4 MB - Last synced: 25 days ago - Pushed: over 1 year ago - Stars: 30 - Forks: 10

david-barnett/microViz

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

Language: R - Size: 399 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 86 - Forks: 9

microbiome/miaViz

Microbiome Analysis Plotting and Visualization

Language: R - Size: 1.24 GB - Last synced: 13 days ago - Pushed: 13 days ago - Stars: 7 - Forks: 8

biocorecrg/microbiome_procedures

Mothur procedures for 16S and ITS analysis

Language: R - Size: 124 MB - Last synced: about 1 year ago - Pushed: about 2 years ago - Stars: 3 - Forks: 6

microsud/microbiomeutilities

The is mostly a wrapper tool using phyloseq and microbiome R packages.

Language: R - Size: 40 MB - Last synced: 7 months ago - Pushed: over 1 year ago - Stars: 31 - Forks: 6

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

cepdnaclk/e17-6sp-Host-Pathogen-Interaction

Building the software for analyzing the microbiome data using machine learning technics. the application provides the GUI for the user they can easily analyze the data without any other programming knowledge developed by @piriyaraj @varnaraj @thanujan @rilwan292

Language: CSS - Size: 29.2 MB - Last synced: 6 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 5

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

CMU-SAFARI/Genome-on-Diet

Genome-on-Diet is a fast and memory-frugal framework for exemplifying sparsified genomics for read mapping, containment search, and metagenomic profiling. It is much faster & more memory-efficient than minimap2 for Illumina, HiFi, and ONT reads. Described by Alser et al. (preliminary version: https://arxiv.org/abs/2211.08157).

Language: Roff - Size: 63 MB - Last synced: 20 days ago - Pushed: 8 months ago - Stars: 11 - Forks: 4

wijerasa/bioinformatics-projects

A Collection of Bioinformatics Projects

Language: Python - Size: 9.2 MB - Last synced: 10 months ago - Pushed: over 5 years ago - Stars: 7 - Forks: 4

tmbuza/iMAP

iMAP v1.0 (Pre-release): Integrated Microbiome Analysis Pipeline

Language: HTML - Size: 160 MB - Last synced: 22 days ago - Pushed: 22 days ago - Stars: 14 - Forks: 4

smdabdoub/phylotoast

Tools for phylogenetic data analysis including visualization and cluster-computing support.

Language: Python - Size: 79.7 MB - Last synced: 13 days ago - Pushed: over 2 years ago - Stars: 12 - Forks: 4

mikemc/metacal

Metagenomics calibration R package

Language: R - Size: 1.63 MB - Last synced: 7 months ago - Pushed: about 2 years ago - Stars: 17 - Forks: 4

cafferychen777/MicrobiomeStat

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

Language: R - Size: 15.7 MB - Last synced: about 22 hours ago - Pushed: 1 day ago - Stars: 24 - Forks: 3

vallenderlab/MicrobiomeR

A comprehensive and customizable R package for microbiome analysis.

Language: R - Size: 18.8 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 18 - Forks: 3

dib-lab/2021-paper-ibd

Meta-analysis of metagenomes via machine learning and assembly graphs reveals strain switches in Crohn’s disease

Language: HTML - Size: 44.2 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago - Stars: 3 - Forks: 3

jjcolgan/group7Repo

Predictive model, utilizes several machine learning algorithms to predict patient disease status from abundance data

Language: Python - Size: 233 KB - Last synced: 7 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 2

surh/pbi

Microbiome analysis for phosphate-defense interaction

Language: R - Size: 149 KB - Last synced: about 1 year ago - Pushed: over 4 years ago - Stars: 4 - Forks: 2

EmoryIntegratedComputationalCore/Methods

Some of the analytical processes and tools we use to provide rigorous and actionable results to our clients.

Language: R - Size: 18 MB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 5 - Forks: 2

k8hertweck/FieldLabComparison

microbiome analysis of ant colonies

Language: Shell - Size: 1.27 MB - Last synced: about 1 year ago - Pushed: over 5 years ago - Stars: 2 - Forks: 2

TealFurnholm/Strain-Level_Metagenome_Analysis

Using a universal reference database, mixed assemblies, and cutting-edge software to give you the quantitative community phylogeny, a complete community functional analysis, and many strain(ish)-level high-quality bins.

Language: Perl - Size: 821 KB - Last synced: 7 months ago - Pushed: about 2 years ago - Stars: 3 - Forks: 2

carden24/V-Xtractor

Repository for V-Xtractor an open-source, high-throughput software tool to identify and extract hypervariable regions of small subunit (16S/18S) ribosomal RNA gene sequences

Language: Perl - Size: 1.08 MB - Last synced: 7 months ago - Pushed: over 3 years ago - Stars: 5 - Forks: 2

JelenaBanjac/microbiome-toolbox

Early Life Microbiome Toolbox

Language: Jupyter Notebook - Size: 67.9 MB - Last synced: 27 days ago - Pushed: 5 months ago - Stars: 8 - Forks: 2

guokai8/microbial

Do microbiome analysis with dada2 and phyloseq object

Language: R - Size: 859 KB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 8 - Forks: 2

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: 7 days ago - Pushed: 7 days ago - Stars: 2 - Forks: 2

northomics/pepFunk

Peptide-centric functional enrichment tool

Language: R - Size: 18.5 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago - Stars: 4 - Forks: 2

erictleung/dada2HPCPipe

:ocean: 16S rRNA microbiome data analysis workflow using DADA2 and R on a high performance cluster using SLURM

Language: R - Size: 92.8 KB - Last synced: 14 days ago - Pushed: almost 6 years ago - Stars: 3 - Forks: 2

LebeerLab/tidytacos

Functions to manipulate and visualize microbial community data

Language: R - Size: 16.3 MB - Last synced: 2 days ago - Pushed: 3 days ago - Stars: 7 - Forks: 1

pnnl/brislawn-2018-founders-species

🦠 📓 a microbiome paper

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m-crown/OMEinfo

Automated retrieval of consistent geographical metadata for microbiome research!

Language: Python - Size: 15.9 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 2 - Forks: 1

valentynbez/spatial_sinus_microbiome

Code for the paper "Spatial variability of the microbiome in chronic rhinosinusitis is associated with the patients’ clinical characteristics but not with sinus ostia occlusion" by Szaleniec et al. 2022

Language: Jupyter Notebook - Size: 4.42 MB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 0 - Forks: 1

niaid/microbiome

Microbiome Data Analysis and Nephele Demo

Size: 14.6 KB - Last synced: 7 months ago - Pushed: over 4 years ago - Stars: 1 - 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

ajmolstad/SpPDCC

R package for estimating sparse and positive definite basis covariance matrices from compositional data

Language: R - Size: 164 KB - Last synced: about 12 hours ago - Pushed: 1 day ago - Stars: 1 - Forks: 1

statdivlab/paramedic

Predicting Absolute and Relative Abundance by Modeling Efficiency to Derive Intervals and Concentrations

Language: R - Size: 120 MB - Last synced: 14 days ago - Pushed: 15 days ago - Stars: 12 - Forks: 1

cb-42/cbmbtools

General purpose package containing useful functions for microbiome analysis pipelines

Language: R - Size: 165 KB - Last synced: 7 months ago - Pushed: over 3 years ago - Stars: 0 - Forks: 1

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

LeonDlugosch/MetaSeq-Toolkit

This pipeline is intended to be a convenient way to work though large sets of metagenomic or metatranscriptiomic datasets while also retaining high analytical flexibility due to retained intermediate results that might be useful outside of the intended purpose.

Language: Shell - Size: 102 MB - Last synced: 4 months ago - Pushed: over 1 year ago - Stars: 4 - Forks: 1

Zubair2021/16S_Microbiome_Analysis

This repository provides scripts for the 16S microbiome analysis and metagenome prediction using linux and R-Studio

Language: Shell - Size: 33.2 KB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 0 - Forks: 1

yanxianl/Li_AqFl1-Microbiota_2021

Code for reproducing results published in the paper: "Consistent changes in the intestinal microbiota of Atlantic salmon fed insect meal diets"

Language: HTML - Size: 450 MB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 2 - Forks: 1

YushuShi/sparseMbClust

Use MFMDM and MFMDTM to cluster microbiome data

Language: MATLAB - Size: 992 KB - Last synced: 11 months ago - Pushed: over 1 year ago - Stars: 2 - Forks: 1

marinavannucci/dmbvs Fork of duncanwadsworth/dmbvs

R/C code for Bayesian variable selection for Dirichlet-multinomial regression models. Accompany paper: Wadsworth et al. (2016). An Integrative Bayesian Dirichlet-Multinomial Regression Model for the Analysis of Taxonomic Abundances in Microbiome data. BMC Bioinformatics 18:94.

Language: C - Size: 214 KB - Last synced: 9 months ago - Pushed: 9 months ago - Stars: 0 - Forks: 1

niaid/metagenote-training

Training materials for METAGENOTE

Size: 6.69 MB - Last synced: about 1 year ago - Pushed: about 4 years ago - Stars: 0 - Forks: 1

nthomasCUBE/microbComp

pairwise comparison between two OTU - species abundance tables

Language: R - Size: 174 KB - Last synced: 7 months ago - Pushed: almost 5 years ago - Stars: 0 - 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

CMU-SAFARI/MetaTrinity

MetaTrinity is a novel metagenomic analysis tool employing efficient containment search techniques and heuristics for read mapping to achieve significant speedup while maintaining high accuracy. This positions MetaTrinity as an efficient solution, optimally balancing speed and precision in metagenomic analysis.

Language: HTML - Size: 53.3 MB - Last synced: 20 days ago - Pushed: 3 months ago - Stars: 4 - Forks: 1

mucosal-immunology-lab/microbiome-analysis

A selection of analytical approaches, tools, and utilities for the processing of microbiome data derived from either 16S rRNA amplicon sequencing or shotgun metagenomics.

Language: R - Size: 1.6 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 2 - Forks: 0

shivankurkapoor/microbiome-data-analysis

Microbiome Data Analysis

Language: Python - Size: 42 KB - Last synced: about 1 year ago - Pushed: about 5 years ago - Stars: 1 - Forks: 0

sPuntinG/Galaxea_Microbiome_PCI

Code and raw data for *Galaxea fascicularis* microbiome data analysis

Language: R - Size: 11.9 MB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

amnona/dbbact-calour

dbBact (https://dbbact.org) interface for Calour (https://github.com/biocore/calour) for microbiome 16S analysis

Language: Jupyter Notebook - Size: 132 MB - Last synced: 5 days ago - Pushed: about 1 month ago - Stars: 1 - Forks: 0

gauravcodepro/ontology-annotation-count

a function to calculate the genome annotation for the microbiome and also for the other genomes. It will take a genome annotation or a text file and will prepare the count and also for the gene ontology analysis

Language: Python - Size: 27.3 KB - Last synced: 9 days ago - Pushed: 14 days ago - Stars: 0 - Forks: 0

rwst/process-ubiome-16S 📦

process raw reads from ubiome

Language: Python - Size: 10.7 KB - Last synced: about 1 year ago - Pushed: almost 6 years ago - Stars: 2 - Forks: 0

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

Brochado-Kith/microbiome_analysis

The following codes are focused on microbiome analysis, alpha, beta and relative abundance differences.

Language: R - Size: 1.34 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 3 - Forks: 0

TessaBeaver/TBeaver-G-childressi-microbiome-analysis

Microbial community dynamics during key life-history transitions in the chemosymbiotic mussel, Gigantidas childressi

Language: R - Size: 17.6 KB - Last synced: 6 days ago - Pushed: 6 days ago - Stars: 0 - Forks: 0

jinhuili-lab/MicrobioSee2

MicrobioSee2, a desktop sofware for visulization of microbiome result, which contian multiple modules, such as Alpha Diversity, Beta Diversity, Species Conpositions, volcano plot, and pie chart.

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mccahill/docker_rstudio_ibiem

Docker RStudio container for Duke University IBIEM 2017 - Integrative Bioinformatics for Investigating & Engineering Microbiomes

Language: Shell - Size: 85.9 KB - Last synced: about 1 year ago - Pushed: about 6 years ago - Stars: 1 - Forks: 0

FabbriniMarco/microbAIDeR

An ensemble of functions for easier and quicker preliminary microbiome analyses

Language: R - Size: 237 KB - Last synced: about 3 hours ago - Pushed: about 4 hours ago - Stars: 0 - Forks: 0

vanessapino/AUMicrobio

AU microbiome molecular exploratory analyses for NSW

Language: R - Size: 17.6 KB - Last synced: 4 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

bioinfonupeb/hfd-insitu-microbiome

Codes for the statistical analysis that investigates the impact of high-fat diet on gut microbiome and serotonergic gene expression in the raphe nuclei.

Language: Shell - Size: 28.3 KB - Last synced: about 1 year ago - Pushed: about 2 years ago - Stars: 1 - Forks: 0

Sam-Koehler/USDA-ARS-fusarium-community

R workflows used to analyze microbial community sequence data

Language: R - Size: 205 KB - Last synced: about 1 year ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

sarahtanja/coral-pae-temp

This repo details the multi-stressor exposure experiment conducted in August 2022 at Hawaii Institute of Marine Biology (HIMB) in Kaneohe Bay. In this experiment coral fragments were exposed to increasing levels of phthalate pollution and thermal stress for 48 hours.

Language: Jupyter Notebook - Size: 1.21 GB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0

cpauvert/PLNnetwork-workflow

Infer network from count data within Snakemake using a sparse Poisson lognormal model (PLNnetwork)

Language: R - Size: 24.4 KB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

RiboRings/uranouchi42microdiversity

In this repository live the bash, R and Julia scripts used to explore the microdiversity of the prokaryotic community at Uranouchi Inlet (42-sample time-series) by means of metagenomic shotgun sequencing under the supervision of the Ogata Lab.

Language: R - Size: 110 KB - Last synced: 12 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0

cb-42/ATS2020_PG9

Materials for ATS 2020 PG9: A HANDS-ON INTRODUCTION TO STUDYING THE LUNG MICROBIOME

Size: 994 KB - Last synced: about 1 year ago - Pushed: almost 4 years ago - Stars: 1 - Forks: 0

jessmhoehner/Methods Fork of EmoryIntegratedComputationalCore/Methods

Some of the analytical processes and tools we use to provide rigorous and actionable results to our clients.

Language: R - Size: 18 MB - Last synced: 9 months ago - Pushed: over 3 years ago - Stars: 1 - 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

hhuang2018/mwas Fork of danknights/mwas

Generic code for performing microbiome-wide association studies with a variety of models

Language: R - Size: 4.25 MB - Last synced: 9 months ago - Pushed: about 6 years ago - Stars: 0 - Forks: 0

SevanEsaian/Giant-Kelp-Associated-Microbiome-Metagenomics

This repository contains bash scripts, R code, and explanations for the steps involved in assembling and analyzing the metagenomes of bacteria from giant kelp blades in the Santa Barbara Channel.

Size: 23.4 KB - Last synced: 11 months ago - Pushed: 11 months ago - Stars: 0 - Forks: 0

ihdavjar/Data_For_Biomarker_Analysis

This Repo contains all the data required for Biomarker Analysis of gut cancer patients.

Language: R - Size: 12.6 MB - Last synced: 6 months ago - Pushed: 6 months ago - Stars: 1 - Forks: 0

val92loz/HFD-NR_microbiome

This repository provides the scripts used to analyze the metagenomics data from the paper Nicotinamide Riboside-Conditioned Microbiota Deflects High-Fat Diet-Induced Weight Gain in Mice.

Language: Python - Size: 215 MB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 1 - Forks: 0

akshayparopkari/phylotoast Fork of smdabdoub/phylotoast

Tools for phylogenetic data analysis including visualization and cluster-computing support.

Language: Python - Size: 79.7 MB - Last synced: about 1 year ago - Pushed: almost 6 years ago - Stars: 0 - Forks: 0

aortiz24/FieldLabComparison Fork of k8hertweck/FieldLabComparison

microbiome analysis of ant colonies

Language: Shell - Size: 133 KB - Last synced: about 1 year ago - Pushed: about 6 years ago - Stars: 0 - Forks: 0

mmtechslv/PhyloMAF

Next Generation Phylogenetic Microbiome Analysis Framework

Language: Python - Size: 86.5 MB - Last synced: about 1 year ago - Pushed: about 2 years ago - Stars: 1 - Forks: 0

knightlab-analyses/dynamics

Analysis of Multiple Circadian/Longitudinal Datasets

Language: Jupyter Notebook - Size: 43.6 MB - Last synced: about 1 year ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

alexmanuele/QUOREM Fork of mwhall/QUOREM

QUOR'EM: Query, Update, Organize, and Render 'EM

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zhuchcn/phylox

Language: R - Size: 1.11 MB - Last synced: about 1 year ago - Pushed: over 5 years ago - Stars: 0 - Forks: 0

DanielSprockett/reltools

Microbiome Amplicon Analysis and Visualization

Language: R - Size: 32.2 KB - Last synced: about 1 year ago - Pushed: over 6 years ago - Stars: 5 - Forks: 0

cometsong/SixteenS_NXF

16S Microbiome Analysis Pipeline. This version written in Nextflow.

Language: Shell - Size: 18.6 KB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

chuanfuyap/motu-python-package

Tools to handle metagenomic data manipulation

Language: Python - Size: 56.6 KB - Last synced: about 1 year ago - Pushed: over 2 years ago - Stars: 0 - Forks: 0

RiboRings/mia_presentations

quarto presentations about microbiome analysis and data integration

Language: JavaScript - Size: 2.45 MB - Last synced: 12 months ago - Pushed: 12 months ago - Stars: 0 - Forks: 0

Djeppschmidt/QSeq

QSeq package and functions for microbiome analysis

Language: R - Size: 85.9 KB - Last synced: 9 months ago - Pushed: 9 months ago - Stars: 0 - Forks: 0

FischbachLab/hCom_variable_regions

Extract and compare variable regions from hCom genomes.

Language: Shell - Size: 18.6 KB - Last synced: about 1 year ago - Pushed: about 2 years ago - Stars: 0 - Forks: 0

knightlab-analyses/circadian-ihc

Circadian Experiments - Microbiome, Metabolome

Language: Jupyter Notebook - Size: 19.9 MB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0

knightlab-analyses/longitudinal-osa

Longitudinal OSA Experiments - Lesion, Microbiome, Metabolome

Language: Jupyter Notebook - Size: 83.5 MB - Last synced: about 1 year ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

meyermicrobiolab/Microbiomes-of-nursery-reared-Acropora-cervicornis

R scripts used for the analysis of microbiomes of nursery-reared Acropora cervicornis

Language: R - Size: 2.29 GB - Last synced: 12 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

microsud/microbiometutorials.gihub.io

This website gives an introduction to microbial community analysis.

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Amit-H/Mining-for-microbes

Reusing publicly available whole transcriptome data to determine the state of the microbiome at time of sampling.

Size: 1000 Bytes - Last synced: 10 months ago - Pushed: over 2 years ago - Stars: 1 - Forks: 0

rajaldebnath/Code-documentation

Project code documentation

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joycewang914/Nursing_Home_Patient_Gut_Microbiota

Identifying gut microbiome features associated with the risk of acquiring an enteric drug-resistant organism (e.g. vancomycin-resistant Enterococcus and resistant gram-negative bacteria) in patients recently discharged from acute-care hospital and admitted into nursing homes.

Language: R - Size: 207 KB - Last synced: 11 months ago - Pushed: almost 4 years ago - Stars: 1 - Forks: 0

RiboRings/uranouchi9microdiversity

In this repository live the bash, R and Julia scripts used to explore the microdiversity of the prokaryotic community at Uranouchi Inlet (9-sample time-series) by means of metagenomic shotgun sequencing under the supervision of the Ogata Lab.

Language: R - Size: 50.8 KB - Last synced: 12 months ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0