Nanoblot: an R-package for visualization of RNA isoforms from long-read RNA-sequencing data.

ABSTRACT: RT-PCR and northern blots have long been used to study RNA isoforms usage for single genes. Recent advancements in long-read sequencing have yielded unprecedented information about the usage and abundance of these RNA isoforms. However, visualization of long-read sequencing data remains challenging due to the high information density. To alleviate these issues, we have developed NanoBlot, an open-source R-package that generates northern blot and RT-PCR-like images from long-read sequencing data. NanoBlot requires aligned, positionally sorted and indexed BAM files. Plotting is based around ggplot2 and is easily customizable. Advantages of NanoBlot include a robust system for designing probes to visualize isoforms including excluding reads based on the presence or absence of a specified regi

SUBMITTER: DeMario S 

PROVIDER: S-EPMC10351882 | biostudies-literature | 2023 Aug

REPOSITORIES: biostudies-literature