Improved transcriptome assembly using a hybrid of long and short reads with StringTie.

ABSTRACT: Short-read RNA sequencing and long-read RNA sequencing each have their strengths and weaknesses for transcriptome assembly. While short reads are highly accurate, they are rarely able to span multiple exons. Long-read technology can capture full-length transcripts, but its relatively high error rate often leads to mis-identified splice sites. Here we present a new release of StringTie that performs hybrid-read assembly. By taking advantage of the strengths of both long and short reads, hybrid-read assembly with StringTie is more accurate than long-read only or short-read only assembly, and on some datasets it can more than double the number of correctly assembled transcripts, while obtaining substantially higher precision than the long-read data assembly alone. Here we demonstrate the impr

SUBMITTER: Shumate A 

PROVIDER: S-EPMC9191730 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature