StockManiac is a alternative Asset Inventory System with web based user interface. It can retrieve quotes and news feeds automatically and has a time-machine like design which distinguishes it from many other portfolio management applications.
Uber-Uploader is a web based file upload mechanism that uses AJAX to display a progress bar.
Pan-genome Ortholog Clustering Tool
PanOCT, Pan-genome Ortholog Clustering Tool, is a program written in PERL for pan-genomic analysis of closely related prokaryotic species or strains. Unlike traditional graph-based ortholog detection programs, it uses micro synteny or conserved gene neighborhood (CGN) in addition to homology to accurately place proteins into orthologous clusters.
A multi-purpose extensible self-adaptive evolutionary algorithm
MicroGP (uGP) is a versatile optimizer able to outperform both human experts and conventional heuristics in finding the optimal solution of hard problems. It is an evolutionary algorithm since it mimics some principles of the Neo-Darwinian paradigm.
A native, dual-bootable ubuntu for the HTC™ HD2 Phone (qsd8250 SoC)
ubnhd2 is a security and pentest focused ubuntu/debian system that runs natively on the HTC HD2 phone. To boot this you need the Magldr on your phone and the first FAT partition should be named "SD". The wifi drivers are not included check the Ubuntu HTC HD2 Section from forum.xda-developers.com/showthread.php?t=1975081 for more details.
Project has been move to https://github.com/ciaa/Firmware
The project is not more active, we have fix a lot of issue and perform many improvements. These are now deliverd as part of a new project: https://github.com/ciaa/Firmware ---- FreeOSEK is a scalable solution for embedded system. FreeOSEK OS is based on OSEK RTOS specification (OSEK-VDX). visit us in: http://opensek.sourceforge.net
A Web-based genome-wide Position Weight Matrix (PWM) Scanner
PWMScan is used to scan a position weight matrix (PWM) against a genome or, in general, a large set of DNA sequences. The PWM is the most commonly used mathematical model to describe the DNA binding specificity of a transcription factor (TF). A PWM contains scores for each base at each position of the binding site. The TF binding score for a given k-mer sequence is then obtained by simply adding up the base-specific scores at respective positions of the binding site. PWMScan takes as input a PWM, the background probabilities for the letters of the DNA alphabet, and a threshold score or a p-value. The search is carried out across the entire genome sequence. It can accept PWMs, such as those available in the Transfac or Jaspar databases as well as plain-text PWMs. It computes all occurrences of the PWM in the genome sequence for a given p-value threshold or cut-off. The match list is provided in various genome annotation formats, including BEDdetail, FPS, and SGA.
Avestan Unicode Fonts
The glyph outlines origin from Yasna 10 of the manuscript of Tehran University Library, nr. 11263. The scanned manuscript can be viewed under Ave976 on wwww.avesta-archive.com In the manuscript long [i] and long [u] do not differ, as well as both short and long [o]. Nevertheless, long [u] and short [o] are mapped in the font. Their outlines follow the script style of the manuscript. The letters for [θ] and [x] have two different shapes in the manuscript, so I have added one of each of them into the Private Use Area. Most of ligatures encountered in the manuscript have been mapped as well in the Private Use Area range. The punctuation of the manuscript includes only two signs from the Avestan Unicode range: the centered period and the so called "large two dots over one dot", so only these two signs were mapped in the font.
A syslog message generator that replicates real syslog messages
Using templated message formats with customisable placeholders, run in configurable sequences that can selectively reuse data between steps, must allows more intelligent testing of syslog receivers with realistic data, as well as longer soak testing and stress testing. must was created to fill a gap found when trying to stress test Splunk as real, indexable and meaningful data was needed. must will (eventually) be provided as a standalone tool that uses XML configs (for quick use and consultancy etc) and as a web-based tool (for more permanent/pretty deployment (with historical reporting and live stats). SUPPORT: The best way of contacting me is via Twitter below, NEWS: (16/Mar/15) A beta of v2 is finally released - apologies for the long delay!
Text to postscript converter with Unicode support.
Plasmodium Typing Utility Software
The goal of PlaTypUS is to establish a unified Plasmodium whole genome analysis tool, that aligns short read sequences in an agreed upon manner, with many quality control steps, and calls both SNVs and CNVs in a community agreed standard way. We also seek to provide this analysis in a stand-alone graphic user interface so that labs around the world can analyze their own whole genome sequencing data, rather than relying on outside institutes.
Perl-based tool for evaluating multiple sequence alignments
RigExpert AA-xxx antenna analyzer data extraction tool
aa-analyzer is a Perl script written by KB1OIQ which collects data from a RigExpert AA-xxx antenna analyzer and outputs it as a CSV file, which can be imported into any spreadsheet program.
ParseCNV CNV call association software takes CNV calls as input and creates SNP based statistics for CNV occurrence in population study cases and controls then calls CNVRs based on neighboring SNPs of similar significance.
mingw-w64 gcc compiler
Bundled gcc compiler and tools for Perl on MS Windows (32 and 64 bit). Provides C, C++, Fortran
Lightweight Multigene Analyses in PAML
Maldonado E, Almeida D, Escalona T, Khan I, Vasconcelos V and Antunes A (2016) LMAP: Lightweight Multigene Analyses in PAML. BMC Bioinformatics, 17:354. doi: 10.1186/s12859-016-1204-5
Simple Scientific Workflow System for CAGE Analysis
Cap analysis of gene expression (CAGE) is a sequencing based technology to capture the 5’ ends of RNAs in a biological sample. After mapping, a CAGE peak on the genome indicates the position of an active transcriptional start site (TSS) and the number of reads correspond to its expression level. CAGE is prominently used in both the FANTOM and ENCODE project. MOIRAI is a compact yet flexible workflow system designed to carry out the main steps in data processing and analysis of CAGE data. MOIRAI has a graphical interface allowing wet-lab researchers to create, modify and run analysis workflows. Embedded within the workflows are graphical quality control indicators allowing users assess data quality and to quickly spot potential problems. MOIRAI package comes with three main workflows allowing users to map, annotate and perform an expression analysis over multiple samples.
Make a full functioning, low cost DVR system using a Buffalo LS-WXL NAS, HDHomeRun Tuner and some WDTV HD Media Players.
Mendel’s Accountant is a biologically realistic, forward-time, parallel, numerical simulation program which models genetic change within a population, as affected by mutation and selection.
Perl Portable is the amazingly powerful Perl Scripting language made into a portable application for Windows (To PortableApps.com standards. :D)
Run Windows applications on any computer.
WineBOX is an Open Source implementation of the Windows API and a program loader, allowing many unmodified Windows binaries to run on x86-based computers with out need a operative system.
Flip card learning program for iPhone with a spaced learning algorithm. Create your own databases and edit the cards directly on the iPhone. Import Palm databases or csv-formatted files and backup your data with our Java application.
A modern MUD (Multi-User Dungeon) client with automapper
AMudClient is a modern MUD client for Linux, written in Perl/Gtk2. Features include: Supports ANSI, xterm-256, OSC and RGB colours, and visual effects like blinking text Full NAWS, MSSP, MSDP and MTTS support Class-based triggers, aliases, macros, timers and hooks A powerful, but easy-to-use automapper Fast, efficient pathfinding, even in very large maps Choose from 35 pre-configured worlds, or configure your own world profiles using the Locator wizard Multiple approaches to scripting, including Perl plugins Fully-customisable from top to bottom; use the extensive GUI or work from the command line Chat support for MudMaster / zChat Automatic window tiling Telnet / SSH connections
Viral Genome ORF Reader
VIGOR (Viral Genome ORF Reader) is a perl application to predict protein sequences encoded in viral genomes. VIGOR determines the protein coding sequences by sequence similarity searching against curated viral protein databases. Please see the wiki to see list of all supported viruses. This work has been funded in whole or part with federal funds from the National Institute of Allergy and Infectious Diseases, National Institutes of Health, Department of Health and Human Services under contract number HHSN272200900007C.
Convert Netpbm programs to GIMP plug-ins
Netpbm2Gimp automatically compiles the unmodified source code of a Netpbm graphics program into a GIMP plug-in. The result looks and functions like any other GIMP plug-in although it takes much less effort to produce than a hand-coded GIMP plug-in.