Skip to content

HTTPS clone URL

Subversion checkout URL

You can clone with
or
.
Download ZIP
MOLGENIS Advanced Application and Computation Framework for the Life Sciences
Java JavaScript CSS R Shell PHP Other
Branch: testing

Merge pull request #471 from pneerincx/testing

Improved version logging when building compute distros.
latest commit e397f9791c
@pneerincx pneerincx authored
Failed to load latest commit information.
.settings
TestWorkflow
WebContent
apps
doc
modules
publicdata
test Fixed helloWorld test for compute4 to make the sun shine again in Hud…
.classpath.template.xml
.gitattributes
.gitignore
.pmd
.project
.project.template
README.md
build_animaldb.xml
build_bbmri.xml
build_bioshare.xml
build_catalogue.xml
build_cbm.xml improved the performance of harmonization
build_chado.xml
build_chd7.xml
build_col7a1.xml
build_common.xml
build_compute.xml
build_designgg.xml
build_euratrans.xml
build_examples.xml
build_filemanager.xml
build_gcc.xml
build_gcc_jpa.xml
build_gonl.xml
build_gonl_pheno.xml
build_hemodb.xml
build_ibdportal.xml
build_knowledgecenter.xml
build_lifelinesresearchportal.xml
build_myo5b.xml
build_ngs.xml
build_old.xml
build_omicsconnect.xml
build_patho.xml
build_pheno.xml
build_phenoflow.xml
build_plantqtl.xml
build_sandbox.xml
build_scrum.xml
build_wormqtl.xml
build_xqtl.xml
build_xqtl_zip.xml
c3p0.properties
demo.txt
ivy.xml
molgenis.test.properties
pom_animaldb.xml
pom_gids.xml
pom_lifelines.xml
pom_omicsconnect.xml Added pom_omicsconnect.xml.
pom_patho.xml
pom_phenoflow.xml
pom_variant.xml
pom_xqtl.xml
status.txt

README.md

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:

1) 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

2) Model what you want for your experiment in a simple XML file example db, example ui:

 <editor> molgenis.properties
 <editor> molgenis_db.xml
 <editor> molgenis_ui.xml

3) 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)

If you think your project should be listed (differently) please let us know.

Something went wrong with that request. Please try again.