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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....
NGS compute distro proloaded with pipeline analysis software
Forked Ubuntu 14.04 minimal install with XOrg and FluxBox desktop environment for web-based pipeline construction and job submission.
HOWTO:
1) Set VM network settings to a bridged adapter type.
2) Load VM to client
3) From host:
$ ssh -X ubuntu@<foobar> 'firefox && butterfly.server.py --unsecure'
--- passwd = 616287xx
5) or ssh into host with X forwarding, and type runme
This will launch an X-session of Firefox on the client, which will then be forwarded to the host. The...
GenoCAD is a CAD software for synthetic biology. This application provides a web-based tool to design plasmids, artificial gene networks, and other synthetic genetic systems composed of standard genetic parts. It includes a parts management system, a rule-based design tool, and a simulation engine. This project has morphed into a SaaS model. The open source code is no longer maintained.
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A system for automated analysis and data handling for RNAi screens
The iBRAIN2 software system for RNAi high-content screening integrates automated analysis and customizable data management.
It enables robust and complex parallel processing on computer cluster infrastructure and allows for reliable storage of primary and resulting data sets.
The GIIAF Microscopy Library, that uses customised OMERO software
This project incorporates a suite of tools that aim to allow researchers within Griffith's Imaging and Image Analysis Facility (GIIAF) to efficiently and effectively provide secure, centralised, web-accessible data storage, management and manipulation.
The open-source Java-based OMERO software was customised to provide most of the features of this project.
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
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.
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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