Trans Fine Interaction Detector (Trans-FIND)

Trans-FIND detects fine-scale inter-chromosomal interactions at the locus-to-locus level across the genome using high-throughput chromatin conformation capture data (e.g., Hi-C, Micro-C). The genome_blacklist.bed file can be obtained from public sources (e.g., ENCODE).Make sure that both the Python and R scripts are placed in the same working directory. Once set up, you can run the following command to generate the results: python cooler_dump_high.py -i path/to/input.cool -o path/to/output_dir/ -b genome_blacklist.bed