nf-core/rnasplice

A toolset for profiling alternative splicing events in RNA-Seq data.

RNA-seq analysis pipeline for detection of gene-fusions

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)

gatk4 RNA variant calling pipeline

A rust implementation of STAR

Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae Kyung Im, Jonathan K. Pritchard

circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data