Topic: microbiota Goto Github
Some thing interesting about microbiota
Some thing interesting about microbiota
microbiota,Open-source opinionated Galaxy-based framework for microbiota analysis
Organization: asaim
Home Page: http://asaim.readthedocs.io/
microbiota,Analyses Pros-RODAM microbiota data
User: barbarahelena
microbiota,VSEARCH pipeline for ASV inference of 16S seq data
User: barbarahelena
microbiota,Improved bee microbiota characterization using routine 16S rRNA gene sequencing 🐝🧬
User: bdaisley
microbiota,Make Picrust2 Output Analysis and Visualization Easier
User: cafferychen777
Home Page: https://cafferychen777.github.io/ggpicrust2/
microbiota,Master 1 project of 4 students at Institut Agro Montpellier in collaboration with a research lab for population biology and management (CBGP) in Montpellier
User: chloe-perrais
microbiota,Constellab brick for microbiome data analysic
Organization: constellab
Home Page: https://constellab.io/
microbiota,Notebooks and files necessary to replicate the graphs and analyses presented in the Preprint, doi: 10.1101/2020.09.29.20203638
User: danielpodlesny
microbiota,R package for microbiome data visualization and statistics. Uses phyloseq, vegan and the tidyverse. Docker image available.
User: david-barnett
Home Page: https://david-barnett.github.io/microViz/
microbiota,:notebook: Minimal cheatsheet for functions in the phyloseq R package
User: erictleung
microbiota,An ensemble of functions for easier and quicker preliminary microbiome analyses
User: fabbrinimarco
Home Page: https://www.unibo.it/sitoweb/m.fabbrini
microbiota,Repository for pipelines and scripts to analyse microbiota
User: gioche96
microbiota,Les études de métagénomiques mettent en évidence la présence et l'absence de différentes souches dans un microbiome. Pour résumer les abondances, on peut établir des graphes de co-occurence via : Rapid inference of direct interactions in large-scale ecological networks from heterogeneous microbial sequencing data, Janko Tackmann, Joao Frederico Matias Rodrigues, Christian von Mering. bioRxiv 390195; doi : https://doi.org/10.1101/390195 Cependant, ces techniques reposent sur des corrélations et non sur des causalités. Elles ne permettent pas de comprendre les interactions entre organismes. Pour cela, il est important d'intégrer une autre dimension comme les informations contenues dans les réseaux métaboliques des bactéries. Pour cela, certaines bases de données existent : Brunk E, Sahoo S, Zielinski DC, Altunkaya A, Dräger A, Mih N, et al. Recon3D enables a three-dimensional view of gene variation in human metabolism. Nat Biotechnol. Nature Publishing Group; 2018 Mar;36(3):272-81 https://github.com/cdanielmachado/carveme/tree/master/carveme Ce projet vise à proposer une stratégie pour détecter les interactions via les échanges de métabolites via Flux Variability Analysis. La stratégie sera a tester sur des données de microbiotes intestinales fournies par le projet HMP.
User: gletroadec
microbiota,A quick and user-friendly pipeline to go from raw fastq data from Illumina (paired-end sequencing) to processed ASVs and Taxonomic data.
User: headonpillow
microbiota,ECCMID 2024 Abstract #04375. Code used to perform the analysis and figures.
User: hsp-microbiology
microbiota,Meta-analysis on human gut microbiota in Colorectal cancer
User: huazou
microbiota,Tutorial for MicrobiomeAnalysis R package
User: huazou
Home Page: https://zouhua.top/MicrobiomeAnalysis_book/
microbiota,Machine Learning on gut microbiota of patients with Colorectal cancer
User: huazou
microbiota,Calculate Peak-to-Trough Ratio (PTR), plot coverage graph, and perform quality control over contigs in a single pipeline integrating Glimmer3, Bowtie2, Sickle, and algorithms in R.
User: jerrypan2718
microbiota,Association Between Gut Microbiota and Hypertension
User: jjmpal
Home Page: https://jppub.fi/
microbiota,Papers in which I have been involved as data scientist. For the title, info and and/or the DOI of each one of them, check the corrispective "Paper_title_and_info" txt file
User: leandrod94
microbiota,Course material for OPEN & REPRODUCIBLE MICROBIOME DATA ANALYSIS SPRING SCHOOL
Organization: mibwurrepo
microbiota,Python package to study microbial communities using metabolic modeling.
Organization: micom-dev
Home Page: https://micom-dev.github.io/micom
microbiota,The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures
User: microsud
Home Page: https://microsud.github.io/dysbiosisR/
microbiota,R scripts used for analysis of data reported in Comparison of Small Gut and Whole Gut Microbiota of First-Degree Relatives with Adult Patients with Celiac Disease and Controls
User: microsud
microbiota,Data and analysis code for the Indian gut microbiota study
User: microsud
microbiota,A list of R environment based tools for microbiome data exploration, statistical analysis and visualization
User: microsud
Home Page: https://microsud.github.io/Tools-Microbiome-Analysis/
microbiota,This repo models the temporal dynamics of the cervicovaginal microbiome to identify targets that promote reproductive health
User: munozalexander
microbiota,Repository with scripts and data generated during my internship at Institut Pasteur of Paris
User: mvictoriabuss
microbiota,Amplicon sequencing data analysis of skin microbiota in the black olm subspecies using Qiime2
User: nezapajek
microbiota,This directory contains many scripts delving into the downstream analysis of shotgun metagenomic sequencing data from colorectal cancer patient, ICI patients and some IBD patients. This directory is not finished or meant to be copied and used by others. simply to provide examples of code currently being written and worked on.
User: oliverdesa
microbiota,RiboTaxa: combined approaches for rRNA genes taxonomic resolution down to the species level from metagenomics data revealing novelties.
User: oschakoory
Home Page: https://academic.oup.com/nargab/article/4/3/lqac070/6708509
microbiota,biomeUtils is Module-01 of the RIVM-ToolBox. R pkg with common utilities for microbiome research done at the RIVM.
Organization: rivm-iiv-microbiome
Home Page: https://rivm-iiv-microbiome.github.io/biomeUtils/
microbiota,biomeViz is Module-03 of the RIVM-ToolBox. R pkg with data visualization tools for microbiome research done at the RIVM. . Development Phase: Active Development
Organization: rivm-iiv-microbiome
Home Page: https://rivm-iiv-microbiome.github.io/biomeViz/
microbiota,
Organization: schlosslab
microbiota,
Organization: schlosslab
microbiota,A summary of the scripts used in performing quality filtering and data analysis of Illumina high throughout bacterial sequences involved in this freshwater aquatic invertebrate microbiota study.
User: skroetsc-unb
microbiota,Microbiome Study of Lupus Patients
User: vaxherra
microbiota,Package Containing Utility-functions to Work with Microbiota-data.
User: wsteenhu
microbiota,Code for reproducing results in the paper: "Differential response of digesta- and mucosa-associated intestinal microbiota to dietary insect meal during the seawater phase of Atlantic salmon"
User: yanxianl
microbiota,Working Demo on 16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Visit repo website for HTML output
User: ycl6
Home Page: https://ycl6.github.io/16S-Demo/
microbiota,16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo/
User: ycl6
microbiota,Repository for 16S paper
User: zhangyang2017
microbiota,This repository provides scripts for the 16S microbiome analysis and metagenome prediction using linux and R-Studio
User: zubair2021
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