Version 2.2 updates include:

• Adding support for bootstrap analysis (#5)
• Adding support for background network randomization analysis (#6)
• Generalized the support for multiple phosphosites per protein (#6)
• Updating input file format descriptions in the README (#7)

Version 2.1 updates include:

• Adding example scripts and EGFR data to demonstrate Prize-Collecting Steiner Forest (PCSF) integration (#4)
• Adding a script to prepare prizes for PCSF from the TPS input files (#4)
• Adding a script to summarize PCSF output files for TPS (#4)
• Creating a temporal-interpretation.tsv output file that shows the allowed activity events for each protein at each time point, inferred by the dataflow solver (#2)
• Refactoring the TPS data parsing and synthesis code (#2)
• Updating input file format descriptions in the README

Initial TPS software release. Version number begins at 2.0 because version 1.0 refers to the Refiner software from which TPS was derived.