DiffSegR: an RNA-seq data driven method for differential expression analysis using changepoint detection.

ABSTRACT: To fully understand gene regulation, it is necessary to have a thorough understanding of both the transcriptome and the enzymatic and RNA-binding activities that shape it. While many RNA-Seq-based tools have been developed to analyze the transcriptome, most only consider the abundance of sequencing reads along annotated patterns (such as genes). These annotations are typically incomplete, leading to errors in the differential expression analysis. To address this issue, we present DiffSegR - an R package that enables the discovery of transcriptome-wide expression differences between two biological conditions using RNA-Seq data. DiffSegR does not require prior annotation and uses a multiple changepoints detection algorithm to identify the boundaries of differentially expressed regions in the

SUBMITTER: Liehrmann A 

PROVIDER: S-EPMC10632193 | biostudies-literature | 2023 Dec

REPOSITORIES: biostudies-literature