qiime2

There are 63 repositories under qiime2 topic.

  • MSI-QIIME2-Pipeline-Tutorial

    Language:HTML

  • microbiome

    scripts for microbiome analysis

    Language:Shell1

  • skin_microbiome_16S_seq_analyses

    This repository contains code for pre-processing and analysis of 16S rRNA data used to generate results in the paper "Skin bacterial community dynamics of hands and forearms before and after military field exercise".

    Language:R

  • msu-decomp-ms

    A collection of code used in the analysis and visualization of 16S sequencing data (among other things) @ Michigan State University over the course of my master's degree.

    Language:R

  • BeeProjectMetagenomics

    Detection of Phyto and Bee Pathogens in Bee Samples in Canada

  • Microbiome_analysis

    Comparative study of soil microbiome using QIIME2

  • 16S-rRNA-data-analysis

    16S rRNA sequencing data analysis of mice fed with pectin-based prebiotic fiber using both QIIME2 and R.

    Language:R

  • taxonomic_profiling

    Metabarcoding analysis pipeline, using DADA2 and qiime2

    Language:Shell

  • Metagenomics

    Here we discuss strategies and workflows to analyse metagenomics datasets

  • Metagenomics-16SRNA-Qiime2

    Qiime 2, an advanced bioinformatics platform, specializes in analyzing metagenomic data. With a modular plugin architecture, integrated workflows, and visualization tools, Qiime 2 facilitates reproducible and transparent analyses, supporting both command-line and GUI interactions.

    Language:Shell

  • gorilla-cortisol-analysis

    An analysis of cortisol levels and gut microbiome composition in primates (Gorilla) housed in U.S. zoos using the BugSeq-er pipeline.

    Language:R

  • Metagenomics

    Data analysis using QIIME2

  • TBeaver-G-childressi-microbiome-analysis

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

    Language:R

  • zebrafish-conv-mix9-models

    Analysis of 16S rRNA and microscopy data from larval zebrafish

    Language:HTML

  • qiime-2-skin-microbiome

    Analysis of skin microbiome of Rana luteiventris frogs from northern Idaho and eastern Washington using QIIME 2, LEfSe, and R.

  • 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

  • Feature-Selection-Qiime2

    This repository describes the methods used to test different sci-kit learn feature selection methods as part of Qiime2 q2-classifier. It also contains raw data from the tax-credit project.

    Language:Jupyter Notebook

  • redemicro-miliane-nutri

    EXPOSIÇÃO AGUDA AO CHUMBO E SUA RELAÇÃO COM ALTERAÇÕES NO STATUS REDOX E DISBIOSE INTESTINAL EM RATOS

    Language:Jupyter Notebook

  • proteus-skin-microbiome

    Amplicon sequencing data analysis of skin microbiota in the black olm subspecies using Qiime2

    Language:Jupyter Notebook

  • Feature-Selection-Qiime2-

    This repository describes the methods used to test different sci-kit learn feature selection methods as part of Qiime2 q2-classifier.

    Language:Jupyter Notebook

  • loperamide-zebrafish-dysbiosis

    Analysis of 16S rRNA and in vitro data from larval zebrafish with loperamide treatment

    Language:HTML

  • 16S-Qiime-protocol

    16S procedure using Qiime2

    Language:Python

  • PJnitrogenOysterMicrobiomes

    Study of farmed oysters and nitrogen cycling in Point Judith Pond, RI. Scripts for analysis of 16S rRNA amplicon and metatranscriptomic data.

    Language:HTML

  • AllNBayWildOystersCombined

    Scripts for combined 16S analysis and Rscripts to make figures for conclusions chapter of dissertation

    Language:R

  • Vaginal-Microbiome-in-GynCa

    Vaginal microbiome data analysis using QIIME2 in women with gynecologic cancer.

  • MiCoNE-pipeline-paper

    The source code for the MIND pipeline paper

    Language:HTML

  • agpobesity

    agp data to understand gut microbiome and childhood obesity.

    Language:R