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Hi, I'm looking for some help using the fusion-detection tool STAR-Fusion.
After running STAR-Fusion (fusion detector) on my output from STAR (aligner), I am not receiving full results. The "star-fusion.discordant_spans_to_genes.txt" and "star-fusion.spanning_read_names" output files are empty and the Spanning Fragments column in the "star-fusion.fusion_candidates.txt" file is always 0. This problem did not occur when I ran the test data. I looked into the junction files and it appears that column 10 of the junctions file is different in the test data than the output file from STAR; checking the STAR aligner manual, the output file I have matches the description: column 10 contains the read name. Could this discrepancy be causing the problem? Is there possibly an issue with the version of STAR? I am running STAR 2.3.1
Any suggestions would be greatly appreciated.
After running STAR-Fusion (fusion detector) on my output from STAR (aligner), I am not receiving full results. The "star-fusion.discordant_spans_to_genes.txt" and "star-fusion.spanning_read_names" output files are empty and the Spanning Fragments column in the "star-fusion.fusion_candidates.txt" file is always 0. This problem did not occur when I ran the test data. I looked into the junction files and it appears that column 10 of the junctions file is different in the test data than the output file from STAR; checking the STAR aligner manual, the output file I have matches the description: column 10 contains the read name. Could this discrepancy be causing the problem? Is there possibly an issue with the version of STAR? I am running STAR 2.3.1
Any suggestions would be greatly appreciated.