IsoTools: a flexible workflow for long-read transcriptome sequencing analysis.

ABSTRACT:

Motivation

Long-read transcriptome sequencing (LRTS) has the potential to enhance our understanding of alternative splicing and the complexity of this process requires the use of versatile computational tools, with the ability to accommodate various stages of the workflow with maximum flexibility.

Results

We introduce IsoTools, a Python-based LRTS analysis framework that offers a wide range of functionality for transcriptome reconstruction and quantification of transcripts. Furthermore, we integrate a graph-based method for identifying alternative splicing events and a statistical approach based on the beta-binomial distribution for detecting differential events. To demonstrate the effectiveness of our methods, we applied IsoTools to PacBio LRTS data of human hepatocytes tre

SUBMITTER: Lienhard M 

PROVIDER: S-EPMC10287928 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature