melonnpan.trained.model: Weights from a pre-trained MelonnPan model in the PRISM...

In biobakery/melonnpan: Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolite Profiles

Weights from a pre-trained MelonnPan model in the PRISM dataset (Franzosa et al., 2019).

Description

Weight matrix (or model coefficients) based on MelonnPan training in the PRISM dataset (Franzosa et al., 2019).

Usage

data(melonnpan.trained.model)

Format

A data frame of model coefficients from a pre-trained MelonnPan model, as described in Mallick et al. (2019), with 814 UniRef90 IDs (excluding the intercept) and 80 well-predicted metabolites (unique, labeled).

References

Franzosa EA et al. (2019). Gut microbiome structure and metabolic activity in inflammatory bowel disease. Nature Microbiology 4(2):293-305.

Mallick H, Franzosa EA, McIver LJ, Banerjee S, Sirota-Madi A, Kostic AD, Clish CB, Vlamakis H, Xavier R, Huttenhower C (2019). Predictive metabolomic profiling of microbial communities using amplicon or metagenomic sequences. Nature Communications 10(1):3136-3146.

biobakery/melonnpan documentation built on March 26, 2024, 11:42 p.m.