SSPS: August 2020

New in this release:

• A --resume-sampling argument. This allows you to resume a Markov chain from a past session. So if you don't achieve convergence in your first attempt, you can continue collecting samples without having to start all over again.
• We enable multithreaded parallelism with a --multithread flag. This parallelizes each step of the Markov chain and allows SSPS to accumulate more samples in less time.

SSPS: July 2020

New things:

• Updated the Julia version 1.2 -> 1.4; also updated package versions.
• Reorganized the codebase. The SSPS source code now resides in the SSPS directory, which is organized as a Julia package
• Fixed an I/O bug in the DREAM challenge scoring script -- AUCPR and AUCROC were swapped when saving to JSON

SSPS: manuscript version

• Fixed some small I/O bugs
• Improved installation instructions
• Removed unnecessary dependencies
• Set up travis-ci for Linux and OSX. We have also confirmed it's Windows compatible!
• Testing (very simple for now)

SSPS: second release

Fixed some I/O bugs from the previous release (the bugs were introduced during code cleanup -- nothing fundamental).

Updated the *.toml files in julia-project. They were inconsistent before, leading to installation issues.

Clarified some of the installation instructions.

SSPS: first release

Codebase for the original SSPS manuscript: "Inferring Signaling Pathways with Probabilistic Programming" (Merrell et al., 2020).