PRANA: an R package for differential co-expression network analysis with the presence of additional covariates.

ABSTRACT:

Background

Advances in sequencing technology and cost reduction have enabled an emergence of various statistical methods used in RNA-sequencing data, including the differential co-expression network analysis (or differential network analysis). A key benefit of this method is that it takes into consideration the interactions between or among genes and do not require an established knowledge in biological pathways. As of now, none of existing softwares can incorporate covariates that should be adjusted if they are confounding factors while performing the differential network analysis.

Results

We develop an R package PRANA which a user can easily include multiple covariates. The main R function in this package leverages a novel pseudo-value regression approach for a differentia

SUBMITTER: Ahn S 

PROVIDER: S-EPMC10652545 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature