RNA-binding protein motif analysis

RNAmotifs is an integrated R, C++, python softwares that evaluates the sequence around differentially regulated alternative exons to identify clusters of short sequences, referred to as multivalent RNA motifs, bound by RNA-binding proteins

CRAFT is a computational pipeline that predicts circRNA sequence and molecular interactions with miRNAs and RBPs, along with their coding potential. CRAFT provides a comprehensive graphical visualization of the results, links to several knowledge databases, extensive functional enrichment analysis and combination of predictions for different cir…

Software for updated version of TRIBE

RBP module for bindz, a bioinformatics tool to detect regulators' binding sites on RNA sequences.

Package for the definition of biniding sites for iCLIP data

Workflow for automated (e)CLIP analysis. From raw fastq to peak calling and motif analysis.

BRIO: a web server for RNA sequence and structure motif scan (https://doi.org/10.1093/nar/gkab400)

A Nextflow workflow for processing and analyzing CRAC data

Plot position weight matrices (PWM)

R package for unbiased enigm RNA-binding protein (RBP) prediction based on shrinkage discriminant analysis. Enigm RBPs have been found to make up for one half of all RBPs.

Plot position weight matrices (PWM)

RBP-Data-Processing is a repository containing R code for processing RNA-binding protein (RBP) datasets. The code imports the data table, performs data cleaning and transformation operations, and saves the processed dataset. It provides a convenient and reproducible workflow for analyzing RBP data obtained from external sources.

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