Ryuto: network-flow based transcriptome reconstruction.

ABSTRACT:

Background

The rapid increase in High-throughput sequencing of RNA (RNA-seq) has led to tremendous improvements in the detection and reconstruction of both expressed coding and non-coding RNA transcripts. Yet, the complete and accurate annotation of the complex transcriptional output of not only the human genome has remained elusive. One of the critical bottlenecks in this endeavor is the computational reconstruction of transcript structures, due to high noise levels, technological limits, and other biases in the raw data.

Results

We introduce several new and improved algorithms in a novel workflow for transcript assembly and quantification. We propose an extension of the common splice graph framework that combines aspects of overlap and bin graphs and makes it possible to e

SUBMITTER: Gatter T 

PROVIDER: S-EPMC6469118 | biostudies-literature | 2019 Apr

REPOSITORIES: biostudies-literature