The molgenis_apps-legacy from roankanninga

molgenis_apps-legacy's Introduction

MOLGENIS

MOLGENIS is an collaborative open source project on a mission to generate great software infrastructure for life science research. Each app in the MOLGENIS family comes with rich data management interface and plug-in integration of analysis tools in R, Java and web services.

Developing your own

Generate your own in three steps:

Clone the MOLGENIS generator and an empty distro:

git clone https://www.github.com/molgenis/molgenis.git git clone https://www.github.com/molgenis/molgenis_distro.git cd molgenis_distro
Model what you want for your experiment in a simple XML file example db, example ui:

molgenis.properties molgenis_db.xml molgenis_ui.xml
Run the MOLGENIS generator, after that you're able to use your web application. This depends per app, but in general:

ant -f build_[APP].xml clean-generate-compile-test ant -f build_[APP].xml run

MOLGENIS applications

Many molgenis applications have been developed, a not so short overview:

xQTL Workbench for multi-level QTL mapping (project)
Dystrophic Epidermolysis Bullosa (deb-central) mutation database (project, publication)
eXtensible Genotype and Phenotype database (XGAP) (project, publication)
Design of Genetical Genomics Experiments (designGG)] (project, publication)
BBMRI-NL biobank catalague (project)
MAGE-TAB microarray gene experiment object model (MAGETAB-OM)] (project, demo)
Pheno-OM Phenotype observation model (project, demo)
Mouse Resource Browser (MRB) project] (project, publication)
MOLGENIS as data wrapper in Taverna (publication)
Animal observation database (AnimalDB) (project)
Nordic GWAS control database (project, publication)
GWAS Central curation tool (project)
Finnish disease database (FINDIS) (project)
Bacterial microarrays database (MOLGEN-IS) (publication)
Human Metabolic Pathway Database (project, publication)