Which is open source user friendly software tool for analysing metagenomic data of soil microbes for specific regions ?
Metagenomic data of any source is generally huge and difficult to handle on normal office computers with relatively lower capacities. Are there any smaller open source user friendly software tools for arranging and analysing metagenomic data of soil microbes for specific regions ?
Dear Sir,
There are many online tools to analyze NGS data in microbiota studies. But, I suggest you to utilize standard tools such as QIIME. As this will provide you reliable data and will help you to publish in reputed Journal.
Dear Srinivas Petikam ,
If you are not having good computational power then you can use online web tools such as SILVAngs and MGRAST. But online web tools are not that much reliable. If you want to use standalone tool then definitely QIIME2( https://qiime2.org/ ) is best.
I agreed with the suggestion of Qiime software. It has a lot of tutorials and you should manage it properly. Nevertheless, if you do not want to use a command-line interface, I suggest you to use SEED2 (http://www.biomed.cas.cz/mbu/lbwrf/seed/), since it is a user friendly tool. In the webpage you can find also some tutorials and the installation is very easy in windows.
I think MG-RAST suits: https://www.mg-rast.org/ . You just need to do a registration before start.
Once you have processed data and it is in a biom file I would
try Calypso http://cgenome.net:8080/calypso-8.84/faces/uploadFiles.xhtml
Fantastic for analysis and uses a GUI.
If your problem is computational power, I believe that the best place to perform your analysis is at MG-RAST ( www.mg-rast.org), it is an open source where you can perform all your analysis online, in addition to serving as a database to deposit your data. It is easy to handle and a recognized tool in academia.
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