Seiðr: Efficient calculation of robust ensemble gene networks.

ABSTRACT: Gene regulatory and gene co-expression networks are powerful research tools for identifying biological signal within high-dimensional gene expression data. In recent years, research has focused on addressing shortcomings of these techniques with regard to the low signal-to-noise ratio, non-linear interactions and dataset dependent biases of published methods. Furthermore, it has been shown that aggregating networks from multiple methods provides improved results. Despite this, few useable and scalable software tools have been implemented to perform such best-practice analyses. Here, we present Seidr (stylized Seiðr), a software toolkit designed to assist scientists in gene regulatory and gene co-expression network inference. Seidr creates community networks to reduce algorithmic bias and u

SUBMITTER: Schiffthaler B 

PROVIDER: S-EPMC10258422 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature