METSkipper14 is a tool designed to detect MET exon 14 skipping events from RNA-seq data. The tool assumes that the Splice Junction is a region instead of just junction coordinates and checks how much the SJR and exon 14 are encompassing/overlapping each other to calculate the portion of skipped portion in reference to exon 14. An ideal proportion of skipping will be 100% with a good number of support reads. The tool takes filename.SJ.out.tab as input and generates filename.SJ.out_output.tab as output. The tool is available on GitHub, and users can fork the repository and make changes to the original code if required. METSkipper14 is a valuable tool for researchers and clinicians in the field of cancer research and treatment, as it can help identify molecular alterations like MET exon 14 skipping and personalize treatment approaches.
python3 metskipper14.py -i samplename.SJ.out.tab
You can use the test data to check if the script is running fine. Please raise an issue if you face any difficulty.