EricKutschera
commented
1 month ago rmats2sashimiplot is intended for short-read data and it can use output from https://github.com/Xinglab/rmats-turbo. You can also run rmats2sashimiplot without rMATS output (https://github.com/Xinglab/rmats2sashimiplot/tree/v3.0.0?tab=readme-ov-file#bam-files-with-coordinate-and-annotation) but I don't think it will work well with long-read data. One issue is that rmats2sashimiplot filters out reads that have an insertion or deletion and that could be a large proportion of long-reads: https://github.com/Xinglab/rmats2sashimiplot/blob/v3.0.0/src/MISO/misopy/sashimi_plot/plot_utils/plot_gene.py#L557
Hi rMATS team, I need to use rmats-long to analysis my long-read RNA-seq data. Can I use rmats2sashimiplot to visualize my results? Thank you.