Mb-PHENIX: diffusion and supervised uniform manifold approximation for denoizing microbiota data.

ABSTRACT:

Motivation

Microbiota data encounters challenges arising from technical noise and the curse of dimensionality, which affect the reliability of scientific findings. Furthermore, abundance matrices exhibit a zero-inflated distribution due to biological and technical influences. Consequently, there is a growing demand for advanced algorithms that can effectively recover missing taxa while also considering the preservation of data structure.

Results

We present mb-PHENIX, an open-source algorithm developed in Python that recovers taxa abundances from the noisy and sparse microbiota data. Our method infers the missing information of count matrix (in 16S microbiota and shotgun studies) by applying imputation via diffusion with supervised Uniform Manifold Approximation Projection (s

SUBMITTER: Padron-Manrique C 

PROVIDER: S-EPMC10699834 | biostudies-literature | 2023 Dec

REPOSITORIES: biostudies-literature