QIIME2_微生物群集分析

Background

QIIME2是一個功能強大具擴展性的微生物數據分析軟體，主要包括時間和空間分析和可視化工具，使研究人員能夠從原始序列數據開始進行代謝組和基因組數據分析，輸出之數據統計結果，可用於擴展微生物組分析功能，進行豐度預測、多樣性分析及微生物基因註解，自動化數據來源追溯確保數據的可重複，微生物組數據透明化。

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Environment requirement

  • Hardware :    CPU : 10 cores
  • RAM : 45 Gb
  • Software :The pipeline is developed based on GA System. All software used in the pipeline are included in pre-defined software environments (GA application collection ). Please install suitable environment before start the pipeline(How to do it!) .


The diagram of workflow


GASystemChannel

(coming soon)

－GA09 QIIME2 微生物群集分分析

－GA10 QIIME2 Alpha多樣性分析

－GA11 QIIME2 Beta多樣性分析

－GA12 QIIME2微生物種系分析

－GA13 微生物基因註解分析

－GA14 基因豐度預測


Reference

MicrobiomePathSource
Silva138NBscikit0.24.1/staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/QIIME2_Data_resources
Greengenes138NBscikit0.24.1/staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/QIIME2_Data_resources
RDPtraset18scikit0.24.1/staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/RDPclassifier/RDP Classifier
NCBIBioProj33175scikit0.24.1/staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/NCBIclassifier/BioProject_33175/QIIME2_forum
NCBIBioProj33317scikit0.24.1/staging/reserve/GAResource/GA_bundle/Ref/Microbiome/QIIME2/v2021.8/NCBIclassifier/BioProject_33317/QIIME2_forum