Process to merge biom files

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3.8 years ago

dpc ▴ 240

Hi, I am analysing shotgun metagenomic sequencing data with MetaPhlAN 3.0 software. I want to do statistical analysis from the metaphlan abundance or the biom output files. Someone suggested me to use STAMP for the statistical analysis by importing the biom files. For that, I have to at first merge the biom files and then import them. But I am not getting any tools to merge them. Can anyone please suggest me any tools to merge the biom and do the subsequent statistical analysis?

Thanks, DC7

metaphlan biom wgs • 1.5k views

ADD COMMENT • link updated 2.2 years ago by serene.s • 0 • written 3.8 years ago by dpc ▴ 240

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Hi DC!

Were you able to merge the biom format of all the profile into one biom format merged file by metaphlan3? I am also trying to do the same or if not did you find any other method to do the statistical analyses for your results from metaphlan3? I also tried to import the metaphlan3 profiles into the phyloseq but got no success, I had once asked about it on biobakery forum to you. If you were able to do it then please share the code.

Thanks

ADD REPLY • link 2.2 years ago by serene.s • 0

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