Bullet PURPOSE: The compiled codes are for reconstruction of 3D structure of chromatins using Hi-C data based on two model-based algorithms, tPAM and tREX. Instruction (Description.txt) for runing the compiled codes are contained in the folder for download. The folder also contains two sample input files: demo.txt and bias.txt; their format are specified in Description.txt. In addition, two sample bash commands are provided in tREX.txt and tPAM.txt. The codes are written in C, and the posted version was compiled with Mac OS X version 10.8.5. A user friendly R package will be posted later after it is well tested.

The folder may be downloaded from the link below

 Bullet folder containing the compiled C codes, description, and example data file.

If you have any questions, please email Jincheol Park ( or Shili Lin (