What is FunOMIC?

While analysis of the bacterial microbiome has become routine, that of the fungal microbiome, namely mycobiome, is still hampered by the lack of robust fungal databases and bioinformatic pipelines. Here, we present FunOMIC, a pipeline with built-in taxonomic and functional databases for the identification of fungi in shotgun metagenomic sequencing data.

Download

FunOMIC: pipeline
FunOMIC.sh
FunOMIC-T: database for taxonomic mycobiome profiling that includes more than 1.6 million fungal single-copy marker genes
###upload the FonOMIC-T file here FunOMIC-P: database for functional mycobiome profiling that includes more than 3 million fungal protein sequences
###upload the FonOMIC-P file here

Citing FunOMIC

If you use FunOMIC, please cite:

Under reviewing
Xie, Z. and Manichanh, C. (2022). FunOMIC: Pipeline with built-in Fungal Taxonomic and Functional Databases for Human Mycobiome Profiling. http://doi.org/XXXXX

As well as all third-party tools used by the pipeline.