iNA is a computational tool for quantitative analysis of fluctuations in biochemical reaction networks. Such fluctuations, also known as intrinsic noise, arise due to the stochastic nature of chemical reactions and cannot be ignored for when some molecules are present only in very low copy numbers as is the case in living cells. The SBML-based software computes statistical measures such as means and standard deviations of concentrations within a given accuracy using the analytical system size expansion. The result of iNA’s analysis can be tested against the computationally much more expensive stochastic simulation algorithm.
Portable Computing Language (pocl) aims to become an efficient implementation of the OpenCL standard. In addition to producing an easily-portable Open Source implementation, another major goal of the project is improving performance portability of OpenCL programs with compiler optimizations, reducing the need for target-dependent manual optimizations. At the core of pocl is a set of LLVM passes used to statically parallelize multiple work items with the kernel compiler, even in the presence of work group barriers. This enables parallelization of the fine-grained static concurrency in the work groups in multiple ways (SIMD, VLIW, superscalar, etc.). The code base is modularized to allow easy adding of new "device drivers" in the host-device layer. A generic multithreaded "target driver" is included. It allows running OpenCL applications on a host which supports the pthread library with multithreading at the work group granularity.
SPINA is software for determining constant structure-parameters of endocrine feedback control systems from hormone levels obtained in vivo. The first version of this cybernetic approach allows for evaluating the functional status of the thyroid gland, i.e. thyroid's secretory capacity (GT) and sum activity of peripheral deiodinases (GD).
libusbx is a library which provides generic access to USB devices. As a library, it is meant to facilitate the development of applications which communicate with USB hardware. Its main features are portability (a single cross-platform API for Linux, OS X, Windows, and *BSD), user-mode (no special privileges required), and USB version-agnosticism (all versions of the protocol supported, including USB 3.0).
parsical is a Shehensai or parsi calendar application. It's useful for prayers, birthdays, weddings, navjotes, jashans, and other events. It features sunrise calculation based on the computer timezone (as roj begins at sunrise in this calendar), "previous" and "next" month and year buttons, conversion between Gregorian and Shehensai dates, and jumping to the calendar month on a given date or roj.
h2H Messenger is a secure messenger client that uses PHP OpenSSL functions, mcrypt, and PHPSecLib to encrypt messages at-rest using RSA keys. The user only creates an account and the application handles the public key generation, key management, key exchange, and encryption and decryption of messages. There are no algorithms or key sizes to choose. It uses strong standards (AES 256, 4096 bit RSA Keys, SHA1, SHA512, etc.) in the background, and requires two-factor authentication using a code sent via SMS or using Asterisk.
Groonga is a fast and accurate full text search engine based on an inverted index. Newly registered document instantly appears in search results, and updates are allowed without read locks. These characteristics result in superior performance for real-time applications. It is also a column-oriented database management system (DBMS). Compared with well-known row-oriented systems, such as MySQL and PostgreSQL, column-oriented systems are more suited for aggregate queries.
txtorcon is a Twisted-based asynchronous Tor control protocol implementation. Twisted is an event-driven networking engine written in Python, and Tor is an onion-routing network designed to improve people’s privacy and security on the Internet. It includes unit-tests with 96%+ coverage, multiple examples, and documentation. There are abstractions to track Tor configuration and state (circuits, streams), launch private instances, support Hidden Service, and more.