GitHub topics: microbiome-analysis
KellsWorks/QIIME2-Microbiome-Analysis-Workflow
QIIME2 Microbiome Analysis Workflow
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cafferychen777/MicrobiomeStat
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
Language: R - Size: 104 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 41 - Forks: 6
Gscorreia89/semen-microbiota-infertility
Supporting materials for the manuscript "Characterisation and comparison of semen microbiota and sperm function in men with infertility, recurrent miscarriage, or proven fertility
Language: Jupyter Notebook - Size: 9.42 MB - Last synced at: 6 days ago - Pushed at: 6 days ago - Stars: 0 - Forks: 0
microbiome/miaViz
Microbiome Analysis Plotting and Visualization
Language: R - Size: 1.46 GB - Last synced at: 2 days ago - Pushed at: 2 days ago - Stars: 11 - Forks: 12
opencobra/cobratoolbox
The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
Language: MATLAB - Size: 1.59 GB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 262 - Forks: 323
raeslab/dyspyosis
A python package to calculate the dysbiosis score in microbiome datasets
Language: Python - Size: 901 KB - Last synced at: 12 days ago - Pushed at: 12 days ago - Stars: 1 - Forks: 1
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: 178 MB - Last synced at: 17 days ago - Pushed at: 17 days ago - Stars: 5 - Forks: 2
LebeerLab/tidytacos
Functions to manipulate and visualize microbial community data
Language: R - Size: 20.7 MB - Last synced at: 10 days ago - Pushed at: 20 days ago - Stars: 13 - Forks: 2
microbiome/microbiome
microbiome R package
Language: R - Size: 392 MB - Last synced at: about 8 hours ago - Pushed at: 5 months ago - Stars: 299 - Forks: 55
YuLab-SMU/MicrobiotaProcess
:microbe: A comprehensive R package for deep mining microbiome
Language: R - Size: 6.92 MB - Last synced at: 25 days ago - Pushed at: 26 days ago - Stars: 187 - Forks: 37
RoyDibakar/National-Workshop-Microbiome-Informatics
National workshop on microbiome informatics
Language: R - Size: 42.9 MB - Last synced at: 8 days ago - Pushed at: 27 days ago - Stars: 1 - Forks: 0
david-barnett/microViz
R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
Language: R - Size: 439 MB - Last synced at: 10 days ago - Pushed at: 29 days ago - Stars: 114 - Forks: 11
qiita-spots/qiita
Qiita - A multi-omics databasing effort
Language: Python - Size: 46.4 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 124 - Forks: 81
icoia/microbiome_bioinformatics_analysis_2025
Metabarcoding and 16S rRNA Gene Sequencing (BIOF-Mic101)
Language: R - Size: 315 KB - Last synced at: about 1 month ago - Pushed at: about 1 month 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 at: about 1 month ago - Pushed at: about 2 months ago - Stars: 1 - Forks: 0
vallenderlab/MicrobiomeR
A comprehensive and customizable R package for microbiome analysis.
Language: R - Size: 18.8 MB - Last synced at: 10 days ago - Pushed at: over 2 years ago - Stars: 23 - Forks: 4
IBCHgenomic/microbiome-annotation
genome annotation analyzer for the microbiome analysis
Language: Python - Size: 3.91 KB - Last synced at: about 2 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0
Ebedthan/midas-pub-micro
Analysis Code of MIDAS scientific article #1
Language: R - Size: 5.78 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 0 - Forks: 0
dalmolingroup/metagenome-course
Material para o curso Análise de dados de Metagenômica, organizado pelo Prof. Rodrigo Dalmolin, do Centro Multiusuário de Bioinformática da UFRN
Size: 2.38 MB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 1 - Forks: 0
FabbriniMarco/microbAIDeR
An ensemble of functions for easier and quicker preliminary microbiome analyses
Language: R - Size: 276 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 0
smdabdoub/awesome-rm-omics
List of software packages for repeated measures analysis in -omics data
Size: 170 KB - Last synced at: 2 days ago - Pushed at: 3 months ago - Stars: 2 - Forks: 0
ZjpWei/PALM_package
Fast and reliable association discovery in large-scale microbiome studies and meta-analyses using PALM. (R package)
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Gabriele-Conti/KEGGSearch
Comprehensive KEGG Data Retrieval Using Multiple Sources
Language: R - Size: 40 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0
MALL-Machine-Learning-in-Live-Sciences/IBEROBDIA
Study of the faecal microbiome of patients with metabolic syndrome and type 2 diabetes
Language: R - Size: 2.97 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0
waldronlab/curatedMetagenomicDataAnalyses
Analyses in R and Python Using curatedMetagenomicData
Language: Python - Size: 238 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 26 - Forks: 8
krisrs1128/mbtransfer
`mbtransfer` is an R package for modeling microbiome dynamics. It provides functions for fitting transfer function models, simulating counterfactual trajectories, and selecting significantly perturbed taxa using mirror statistics.
Language: R - Size: 37.3 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 3 - Forks: 0
terry105040819/OTUtabler
this R scripts for people who own a taxonomy table and wnat to transfer into OTU style table for downstream analysis
Language: R - Size: 16.6 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
smdabdoub/phylotoast
Tools for phylogenetic data analysis including visualization and cluster-computing support.
Language: Python - Size: 79.7 MB - Last synced at: 16 days ago - Pushed at: over 3 years ago - Stars: 14 - Forks: 4
marianavelezmunera/FernsMicrobiome
This repository contains all code used to perform the analysis presented in "Changes in the microbial communities of a tree fern along an elevation gradient"
Language: R - Size: 4.39 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0
GPZ-Bioinfo/tmap
topological data analysis of population-scale microbiomes
Language: Python - Size: 11.4 MB - Last synced at: 27 days ago - Pushed at: over 2 years ago - Stars: 32 - Forks: 12
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"
Language: R - Size: 97.7 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0
hermidalc/dragonfish
A fast, efficient, and accurate functional and taxonomic meta-omic profiler built on Pufferfish and the ccdBG
Language: Python - Size: 9.28 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0
alex137911/BME499
Code for 4th year honours thesis project at the University of Waterloo.
Language: Shell - Size: 26.4 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0
m-crown/OMEinfo
Automated retrieval of consistent geographical metadata for microbiome research!
Language: Python - Size: 21.2 MB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 3 - Forks: 1
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.
Language: HTML - Size: 563 MB - Last synced at: 2 days ago - Pushed at: 7 months ago - Stars: 2 - Forks: 1
statdivlab/paramedic
Predicting Absolute and Relative Abundance by Modeling Efficiency to Derive Intervals and Concentrations
Language: R - Size: 120 MB - Last synced at: 6 months ago - Pushed at: about 1 year ago - Stars: 14 - Forks: 1
garudlab/Signature-SNVs
Signature-SNVs a method for selecting signature SNVs from metagenomic data for input into FEAST for source tracking.
Language: R - Size: 1.74 MB - Last synced at: about 1 month ago - Pushed at: about 1 year ago - Stars: 4 - Forks: 0
AlexUmbach/AOViz
short-read amplicon data visualization suite
Language: R - Size: 12.1 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0
guokai8/microbial
Do microbiome analysis with dada2 and phyloseq object
Language: R - Size: 682 KB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 11 - Forks: 3
clemente-lab/mmeds-meta
A database for storing and analyzing omics data
Language: Python - Size: 892 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 2 - Forks: 1
JelenaBanjac/microbiome-toolbox
Early Life Microbiome Toolbox
Language: Jupyter Notebook - Size: 67.9 MB - Last synced at: 2 months ago - Pushed at: over 1 year ago - Stars: 11 - Forks: 2
James-2879/microbiome_analysis
Collection of tools to visualize microbiological abundance data for dissertation.
Language: R - Size: 1.02 MB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 1 - 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 at: 11 months ago - Pushed at: 11 months ago - Stars: 0 - 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 at: 7 days ago - Pushed at: over 2 years ago - Stars: 7 - Forks: 2
adrianagiongo/RhizoWheat-ms1
Workflow and R scripts for Giongo et al. (2024)
Language: TeX - Size: 145 KB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0
qpmnguyen/MZILN
Conditional regression based on a multivariate zero-inflated logistic normal model for microbiome relative abundance data
Language: R - Size: 521 KB - Last synced at: 12 months ago - Pushed at: almost 6 years ago - Stars: 1 - Forks: 0
rajaldebnath/Code-documentation
Project code documentation
Language: Jupyter Notebook - Size: 559 KB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0
ajmolstad/SpPDCC
R package for estimating sparse and positive definite basis covariance matrices from compositional data
Language: R - Size: 164 KB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 1 - Forks: 1
grimmlab/MicrobiomeBestPracticeReview
Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
Language: Shell - Size: 13 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 101 - Forks: 36
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 at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0
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 at: 11 months ago - Pushed at: about 2 years ago - Stars: 109 - Forks: 46
tmbuza/iMAP
iMAP v1.0 (Pre-release): Integrated Microbiome Analysis Pipeline
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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 at: about 1 year ago - Pushed at: about 1 year ago - Stars: 4 - Forks: 1
microsud/microbiomeutilities
The is mostly a wrapper tool using phyloseq and microbiome R packages.
Language: R - Size: 40 MB - Last synced at: 11 months ago - Pushed at: over 2 years ago - Stars: 32 - Forks: 7
AlmaasLab/micInt
R package for analyzing microbial co-occurences
Language: R - Size: 747 KB - Last synced at: 7 months ago - Pushed at: about 3 years ago - Stars: 1 - 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 at: about 1 year ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 0
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 at: 10 months ago - Pushed at: over 1 year ago - Stars: 11 - Forks: 4
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 at: 3 months ago - Pushed at: over 1 year ago - Stars: 4 - 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 at: about 2 months ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 1
Weimar45/Andera
En este repositorio se crearán diferentes flujos de trabajo para el análisis del microbioma con Bioconductor.
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jordiabante/biodive
A reference-free statistical approach to diversity-generating & mobile genetic element discovery
Language: Python - Size: 959 KB - Last synced at: 20 days ago - Pushed at: about 2 years ago - Stars: 5 - Forks: 0
mmpust/IPMN-repository
R session, R scripts, and additional resources accompanying the BMJ Gut paper
Language: R - Size: 424 KB - Last synced at: over 1 year ago - Pushed at: over 1 year 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 at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0
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 at: over 1 year ago - Pushed at: over 1 year ago - Stars: 2 - Forks: 0
ImPaisley/TaxaAbundance_Test
Outlines the process of testing for statistical differences in certain taxa by group utilizing the phyloseq, tidyverse, and various statistical packages within R.
Language: R - Size: 2.93 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
mikemc/metacal
Metagenomics calibration R package
Language: R - Size: 1.63 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 17 - Forks: 4
meyermicrobiolab/Stony-Coral-Tissue-Loss-Disease-SCTLD-Project
R scripts used for the analysis of microbiomes associated with stony coral tissue loss disease (SCTLD) in the Florida Reef Tract
Language: R - Size: 1.93 GB - Last synced at: over 1 year ago - Pushed at: over 5 years ago - Stars: 4 - Forks: 0
cb-42/cbmbtools
General purpose package containing useful functions for microbiome analysis pipelines
Language: R - Size: 165 KB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 1
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 at: over 1 year ago - Pushed at: over 4 years ago - Stars: 5 - Forks: 2
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 at: over 1 year ago - Pushed at: over 2 years ago - Stars: 66 - Forks: 21
jjcolgan/group7Repo
Predictive model, utilizes several machine learning algorithms to predict patient disease status from abundance data
Language: Python - Size: 233 KB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 2
nthomasCUBE/microbComp
pairwise comparison between two OTU - species abundance tables
Language: R - Size: 174 KB - Last synced at: over 1 year ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 1
Russel88/MicEco
Various functions for analysis of microbial community data
Language: R - Size: 873 KB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 36 - Forks: 11
DenisAShah/ZIDM Fork of mkoslovsky/ZIDM
Code for Matt Koslovsky's paper
Size: 451 KB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0
DenisAShah/Frontiers_2017 Fork of ggloor/Frontiers_2017
Supplement for Frontiers article
Size: 1.19 MB - Last synced at: over 1 year ago - Pushed at: about 7 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 at: over 1 year ago - Pushed at: about 7 years 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 at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 0 - 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 at: over 1 year ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0
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 at: over 1 year ago - Pushed at: about 3 years ago - Stars: 3 - Forks: 2
ahmedmoustafa/ALS
Analysis of the gut microbiome of Amyotrophic Lateral Sclerosis (ALS) patients using the DADA2 workflow
Language: Jupyter Notebook - Size: 3.62 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0
sroitman/Varadero_coral_microbiome
All code and analyses performed for: Roitman, S., López-Londoño, T., Joseph Pollock, F. et al. Surviving marginalized reefs: assessing the implications of the microbiome on coral physiology and survivorship. Coral Reefs 39, 795–807 (2020).
Size: 8.39 MB - Last synced at: almost 2 years ago - Pushed at: almost 4 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 at: almost 2 years ago - Pushed at: 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 at: almost 2 years ago - Pushed at: about 4 years ago - Stars: 2 - Forks: 4
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 at: almost 2 years ago - Pushed at: almost 5 years ago - Stars: 1 - 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 at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0
sPuntinG/Galaxea_Microbiome_PCI
Code and raw data for *Galaxea fascicularis* microbiome data analysis
Language: R - Size: 11.9 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
vanessapino/AUMicrobio
AU microbiome molecular exploratory analyses for NSW
Language: R - Size: 17.6 KB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0
wijerasa/bioinformatics-projects
A Collection of Bioinformatics Projects
Language: Python - Size: 9.2 MB - Last synced at: almost 2 years ago - Pushed at: over 6 years ago - Stars: 7 - Forks: 4
yiluheihei/shiny-RevEcoR
An interactive web application that provides a flexible graphical user interface (GUI) to the Reverse Ecology analysis package for R
Language: R - Size: 20.7 MB - Last synced at: about 1 year ago - Pushed at: about 9 years ago - Stars: 3 - Forks: 0
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 at: about 2 years ago - Pushed at: over 3 years ago - Stars: 2 - Forks: 1
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 at: about 2 years ago - Pushed at: almost 3 years ago - Stars: 3 - Forks: 3
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 at: about 2 years ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 0
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 at: 11 days ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 5
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 at: about 2 years ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0
gerverska/fun-gi
hamPCR + Douglas-fir + needle fungi
Language: HTML - Size: 96.3 MB - Last synced at: about 1 year ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0
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 at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 1
rwst/process-ubiome-16S 📦
process raw reads from ubiome
Language: Python - Size: 10.7 KB - Last synced at: about 2 years ago - Pushed at: almost 7 years ago - Stars: 2 - Forks: 0
RIVM-IIV-Microbiome/biomeUtils
biomeUtils is Module-01 of the RIVM-ToolBox. R pkg with common utilities for microbiome research done at the RIVM.
Language: R - Size: 4.9 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 3 - Forks: 0
YushuShi/sparseMbClust
Use MFMDM and MFMDTM to cluster microbiome data
Language: MATLAB - Size: 992 KB - Last synced at: almost 2 years ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 1
