Interactive Microbiome Data Analysis with Parallel-Meta Suite
Conduct interactive and rapid microbiome data analysis on various platforms using Parallel-Meta Suite. This software, developed by a team from Qingdao University, simplifies the process from installation to verification. Utilize the step-by-step guide to download, install, and verify the software to streamline your microbiome research.
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Parallel-Meta Suite: Interactive and rapid microbiome data analysis on multiple platforms Chen Yuzhu, Li Jian, Zhang Yufeng, Zhang Mingqian, Sun Zheng, Jing Gongchao, Huang Shi and Su Xiaoquan Qingdao University, Qingdao, Shandong, China Yuzhu Chen, Jian Li, Yufeng Zhang, Mingqian Zhang, Zheng Sun, Gongchao Jing, et al. 2022. Parallel-Meta Suite: Interactive and rapid microbiome data analysis on multiple platforms. iMeta 1: e1. https://doi.org/10.1002/imt2.1
Preparations Parallel-META Suite(PMS for short) is written in C++ and R. Before starting the installation, you need to install the R and g++ compilers first.
Download Package The process is as follows 1 Open your browser and go to https://github.com/qdu-bioinfo/parallel- meta-suite 2 Click Installation Guide Select the version that matches your operating system to download. 3
Install (Take WSL as an example) The process is as follows Move the package mv /mnt/e/Downloads/parallel-meta-suite-3.7-src.tar.gz / Unzip the package Enter the folder Run the install script Hint: this step is optional
Install (Take WSL as an example) The process is as follows Move the package Unzip the package tar -xzvf parallel-meta-suite-3.7-src.tar.gz Enter the folder Run the install script
Install (Take WSL as an example) The process is as follows Move the package Unzip the package Enter the folder cd parallel-meta-suite Run the install script
Install (Take WSL as an example) The process is as follows Move the package Unzip the package Enter the folder Run the install script source ./install.sh
Verify Your Installation After the installation process is complete, you can use the following command to verify that your installation was successful. Command: PM-pipeline -h This command outputs help information for the pipeline command. In the case of a successful installation, this command prints the following message in your terminal.
Demonstration Once the installation is complete, the PMS is ready to use, we have provided a test example. 1 2 3 The PMS-config is a good helper for you to understand and generate commands. The example could be found in your parallel-meta- suite folder, and its name is example. This example contains several simple sample sequences and the metadata of these samples.
Result View PMS also provides a graphical presentation of the results. Try it 1 2 In the results folder you can find index.html Open it and you can find the results of various analyses here
Still have questions about PMS? You can read the documentation in the installation package. Or PowerPoint PowerPoint Visit PMS GitHub page PowerPoint PowerPoint Contact us Email: suxq@qdu.edu.cn
Summary Yuzhu Chen, Jian Li, Yufeng Zhang, Mingqian Zhang, Zheng Sun, Gongchao Jing, et al. 2022. Parallel-Meta Suite: Interactive and rapid microbiome data analysis on multiple platforms. iMeta 1: e1. https://doi.org/10.1002/imt2.1
iMeta: Integrated meta-omics to change the understanding of the biology and environment iMeta is an open-access Wiley partner journal and launched by scientists of the Chinese Academy of Sciences. iMeta aims to promote metagenomics, microbiome and bioinformatics development by publishing original researches, methods or protocols, and reviews. The goal is to publish highly quality papers (Top 10%, IF > 15) targeting broad audience. Unique features including video submission, reproducible analysis, figure polishing, APC waiver, and promotion by social media with 500,000 followers. The first issue will be released in March 2022. Society: http://www.imeta.science Publisher: https://onlinelibrary.wiley.com/journal/2770596x iMetaScience office@imeta.science iMetaScience iMetaJournal iMeta Submission: https://mc.manuscriptcentral.com/imeta
