search

borenstein-lab / fishtaco

FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of microbiome functional shifts
Other
23 stars 4 forks source link

How can I run FishTaco with QIIME2 and PICRUSt2 output files? #7

Open SUJIA31571314 opened 4 years ago

SUJIA31571314 commented 4 years ago

Hi author, If i run fishtaco PICRUSt-derived metagenomic functional profile, I found the PICRUSt pre-calculated files for genomic content file is too large, and now i use the picrust2 that output file will some different .How can I run FishTaco with QIIME2 and PICRUSt2 output files? Thanks for your answer

engal commented 4 years ago

Hi,

If you're not using a genomic content table, you can use FishTaco's built-in genomic content inference method. This still requires a taxonomic profile and a functional profile as input, but does not require a genomic content table. To do this, use the "-inf" command-line option.

Hope that helps!