Anna Dal Molin's repositories
CRAFT
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 circRNAs. CRAFT is a useful tool to help the user explore the potential regulatory networks involving the circRNAs of interest and generate hypotheses about the cooperation of circRNAs into the regulation of biological processes.
CircFusion
CircFusion is a new software tool to detect linear fusions and f-circRNAs from RNA-seq data, both in samples where the fusion breakpoint is known and in a discovery mode. CircFusion can detect chimeric transcripts even in the presence of multiple translocation breakpoints, both for the main and unbalanced reciprocal fusion, which are quite common in malignant cells. The CircFusion output includes the list of the f-circRNAs and linear RNAs identified for each translocation, and overall for each sample, and other details about the read alignment.