README for GFvoter Supplementary Files

This directory contains supplementary materials for the manuscript “Detection of Gene Fusions in Long-Read Transcriptome Sequencing Data with GFvoter”, including the commands used to run the tools and the resulting outputs. Below is a description of each file:

Files

run_command.txt
- This file contains the exact commands used to run GFvoter and other fusion detection tools.
- It ensures reproducibility by specifying the parameters and options used in the experiments.

Results of GFvoter.zip
- This archive contains the output results generated by GFvoter.
- It includes fusion detection results, along with scoring vectors that indicate how each method contributed to the final fusion calls.

Results of Others.zip
- This archive contains the output results of other fusion detection tools used in the study.
- The results are provided for comparison with GFvoter.

realdata_ground_truth.txt
- Ground truth fusion events for real RNA sequencing datasets.
- Used to evaluate the accuracy of GFvoter and other fusion detection tools on real-world data. - Downloaded from https://github.com/Oshlack/JAFFA/blob/master/known_fusions.txt

simulatedata_ground_truth.txt
- Ground truth fusion events for simulated RNA sequencing datasets.

Notes

• All results are provided in their original format as generated by the respective tools.
• To facilitate further analysis, users can refer to the provided commands in run_command.txt to replicate the results.
• If there are any issues with the files, please contact yutingsdu@163.com.