Open Source PHP Bio-Informatics Software

Open Information Systems for Emergency Services (Open ISES) is a community of software developers, paramedics, EMTs, law enforcement & fire fighters working together to create open source software & training materials for the emergency service community.

GPL-licensed Electronic Medical Record and Practice Management system for medical providers that runs in any web browser in multiple languages. It provides an XML-RPC backend and multiple import and export formats, as well as reporting and other features

Integrated Hospital Information System. PHP,mySQL,PostgreSQL. Surgery, Nursing,Outpatient,Wards,Labs, Pharmacy, Security,Admission,Schedulers, Repair, Communication & more. Multilanguage, WYSIWYG forms, userconfig, embedded workbots. Modular & scalab

GMOD is a set of interoperable open source software components for visualizing, annotating, and managing biological data. See http://gmod.org for more.

Synthetic Biology Software Suite (SynBioSS) is composed of a wiki for biochemical kinetic constants, a graphical interface for simulating synthetic biological pathways, and a simulator that runs on either a desktop or supercomputer.

A simple database designed to allow easy storage and retrieval of Biosort data for C. elegans, but which has a wide potential application for organizing large datasets.

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.

AGENDA (Application for mining Gene Ontology Data)

The Huygens Remote Manager is an open-source, efficient, multi-user web-based interface to the Huygens software by Scientific Volume Imaging (http://www.svi.nl/) for parallel batch deconvolutions.

Stratos viewer is a web based utility to examine DICOM medical images through a web browser. This project is not active anymore. If you are interested in a Dicom web viewer, have a look at our new development: MedView [ https://github.com/jap1968/medview ]

A header file (cexcept.h) that provides Try/Throw/Catch macros similar to those available in C++ for error handling.

An interactive data entry, querying, and editing system based on a generic conceptual schema for taxonomic databases. It combines the automated use of scientific names and synonyms in a species checklist with online access to geographical data and common knowledge data (morphological descriptors, genomics, ecology, vernacular names, economic uses, structured notes and conservation status) about the species. All these data can be cross-indexed to a citation list. The design and standard permits rapid customization to suit any taxonomic group.

Ànfàní EHR - an easy to use and electronic health records framework for hospitals and health centers . Th Ànfàní EHR project project was initially created for developing countries, so ease of use was a priority. The basic system which is just for medical records keeping. It offers following features: - Electronic records forms - File uploads - Image uploads - Other media uploads -(audio, video) - Internationalization - Interface translation in English, French, Spanish , Portuguese, Arabic.

Annotated Gel Markup Language is a simple markup language that is being proposed to markup data obtained by 2D gel electrophorosis.The goal of AGML is to enable proteomics research move into the browsing mode of searching through existing databases.

Arrayline is an extensible bioinfomatics data processing platform

BASE is a database server to manage (locally) the massive amounts of data generated by microarray analysis. It handles biomaterials, raw data and images, and provides integrated and plug-in-able normalization, data viewing and analysis tools.

Bantam is a Distributed Annotation System (DAS) server for laboratories with limited bioinformatics support. Bantam keep things simple by using PHP, GFF and a powerful Microsoft Excel spreadsheet for integrated identifier mapping and ontology term lookup

BioEval, a web-based evaluation platform for one or multiple biomedical text extraction systems and the collaborative creation of gold standards. Handles evaluation of extraction of one to many related entities, plus supporting evidence and normalization

Biological General Repository for Interaction Datasets (BioGRID) is a curated biological database of protein-protein interactions. It strives to provide a comprehensive resource of Protein-Protein interactions for all major species.

BioKemika is an eLearning project at Frankfurt University. Metasearch is the open source search engine framework that is used to guide biochemistry students throught the scientific web, espacially technical databases like NCBI PubMed, etc.

BioMa is a specimen based Biodiversity database Manager. It is designed to store, organize, and manipulate biodiversity-related scientific data, either for the purposes of museums, scientific collections, or research projects.

The project aims to extend the PHP scripting language to enable PHP developers to write bioinformatics applications more rapidly than if they had to start from scratch using \"vanilla php\".

It moves by itself inside networks like virus infection & plagues, it is being written to solve computer virus problem drastically and responsibly. It is legal, free and open for public domain to improve W3 ICT Security.

birdweights is a a package of scripts to analyze data from an automated system for the measurement of mass and identification of birds at perches.

A web based tool that combines automatic extraction of gene and protein entities with manual curation done by the researchers who read and write the biomedical texts. The interface is loaded in web browser extensions and viewed along with the abstract.