IsoTools is a python module for Long Read Transcriptome Sequencing (LRTS) analysis.

An R-shiny app that provides backsplice and canonical splicing analysis for both circular RNA (circRNA) and parental transcripts

SPLICE-q -- A Python tool for genome-wide SPLIcing Efficiency quantification from RNA-seq data.

Integrative Pipeline for Splicing Analyses (IPSA) in Nextflow

RNAMaRs: identification of multivalent RNA Motifs and cognate Regulators of alternative splicing

This pipeline infers exon functional annotations using coordinates from a .gff file and derives corresponding intron coordinates along with relevant annotations. Users can optionally specify the length of intronic fragments to extract. The pipeline is suited for splicing code analyses.

Quantitative analysis of the spliced variants expressed by the major hepatitis B virus genotypes

A webtool for visualizing alternative RNA isoforms across integrated long-read RNA-seq and pseudobulked single-cell short-read RNA-seq data.

Automated pipeline for RNAseq data analysis using nextflow and singularity.

Code for the manuscript "Splicing accuracy varies across human introns, tissues and age".

Calculate five major splicing events using rMATS followed by annotation

Nanopore direct RNA sequencing for cryptic splice mutation in HLRCC

CE-specific qPCR primer design pipeline: Primer3 + pair-wise BLAST against genome & curated RefSeq mRNA to select junction-spanning assays.

Investigating and validating non-canonical splicing sites in GENCODE annotations using real bulk RNA-seq datasets. Understanding evolutionary relationship of validated non-canonical splicing sites.