Open Source Perl Scientific/Engineering Software - Page 8

A.I. security app. Development ceased.

ALEXA-Seq is a method for using massively parallel paired-end transcriptome sequencing for 'alternative expression analysis'.

ANDES. This is a library and a set of applications that can be used to analyze the results of deep sequencing results. (See Li et al.: ANDES: Statistical tools for the ANalyses of DEep Sequencing. BMC Research Notes 2010 3:199.)

APEX Tools is a collection of utilities used in conjunction with the processing of airborne hyperspectral data developed for the ESA-Prodex supported Airborne Prism EXperiment (APEX).

APoDIx is a Portable Bio-Database Index system. It retrieves biological database information from the website of Oxford Journals, save them in a local position, and provides a viewer for display and search the information.

ASGARD is software for metabolic pathway reconstruction, but it can also generate other types of biological sequence annotation (EC and GO numbers, BLAST reports). This program is intended to be run in UNIX-like systems, and supports SGE or PBS.

ASKGene (Automated Sequence Knowledge GENErator) - a customizeable integration platform for sequence-processing bioinformatics tools.

Assimilator is a molecular genetics tool to inform selection of associated genetic variants for functional studies

ASpipe is a pipeline to process GeneSeqer/GMAP alignments and identify alternative splicing (AS) events from the alignments. It requires unix bash, perl 5.0+ with DBI module and MySQL5.0+ to run properly.

Visual GUI programmer for Attiny26 microcontroller for outputting assembly, assembling into hexedecimal and uploading to hardware with an intuitive interface (Tekbots-OSU).

Accent (Advanced Component Control Enhancing Network Technologies) is a comprehensive tool suite that interfaces a variety of communications systems and allows these systems to be controlled through goals (high-level user aims) and policies (lower-level system rules). Accent has been applied to the domains of: o Call Control: for telecommunications, particularly call control in Internet telephony o Home Care: for home automation and telecare, particularly for domestic appliances and devices to support home care o Sensor Networks: sensor networks, particularly managing wind farms However, the approach is generic and extensible for managing other kinds of systems. Accent is essentially software. As most of Accent in in Java, it needs at least a Java Runtime Environment but more likely a Java Software Development Kit. To interact with the real world, Accent needs relevant hardware such as a communications server (softswitch) or home automation equipment.

As of 2018-06-28, this project has moved to https://github.com/AdamaJava. This copy of the code will remain but all new code updates and releases will be from the new site. Java code developed by the Australian ICGC team for operating on next-generation sequencing data. This code is currently being maintained and expanded by the QIMR Berghofer Genome Informatics team (http://www.qimrberghofer.edu.au/lab/genome-informatics/) More details and documentation can be found on the wiki: http://sourceforge.net/p/adamajava/wiki/Home/

ELV provide a wide range of semi professional weather stations with USB connection capability. (WS500, WS550, WS300PC, ...) This projects provides a linux daemon to connect to the base station and obtain and store current and historic weather data.

Genetic analysis programs for affected sibling pair data and discrete traits, including multipoint exclusion mapping, map distance estimation, transmission disequilibrium testing, and relationship validation

Albion is a digital document archive presentation package. Features include a searchable database, an integrated spell checker, and automatic thumbnail generation. As native Perl as possible, the database/photos/search-function can be delivered on CD!

Symbolic Algebra using Perl

Algorithm::MatchingModel is a perl library for running match simulations and statistics for two-sided matching problems. It includes classes for a preference factory, algorithm plug-ins, and gathering statistics between rounds.

A rule-based modelling framework for allosteric proteins and biochemical networks.

AmphetaRate is the first RSS recommendation server. It calculates your likes/dislikes to create a personalized RSS recommendation feed. We also currently provide an aggregator based on AmphetaDesk to communicate to AmphetaRate.

The system is designed for the automated analysis of high throughput sequencing data. At present Aped is focused on the analysis of data derived from Sanger and 454 sequencing. Additional functionality exists for SAGE and taxonomic profiling.

Anubadok: The Bengali Machine Translator. A machine translation system for English to Bengali.

Tab2MAGE uses a flexible spreadsheet format for MIAME annotation of microarray experiments. Tab2MAGE spreadsheets may be submitted directly to ArrayExpress, or used to generate MAGE-ML for data exchange.

ArrayPipeLine is a web-based Laboratory Information Management system, using MySQL, Perl CGI and R. It enables high-throughput analysis of microarray data, providing automation of data handling, and rapid creation and implementation of analysis pipelines

Perl scripts used in the paper "Index-free de novo assembly and deconvolution of mixed mitochondrial genomes" by McComish BJ, Hills SFK, Biggs P and Penny D (2010) Genome Biology and Evolution 2:410-424.

This is a project regarding parsing data from different(general) sources and representing it in form of graphs.