Implementations
Implementations and Use Cases
As part of the MOD-CO project the Diversity Workbench (DWB) module DiversityDescriptions was extended.
The newly implemented functions demonstrate (a) the usability of the software to manage conceptual and procedural schemes and related content data models and (b) its usability to store and proceed meta-omics data in real life use cases. With this background it is now possible to set up ELNs with certain LIMS functions adapted to specialised lab workflows in meta'omics research.
A first real life use case is described under GBOL 2 Fungi: Microbiome community barcode sequencing. The zip archive for the data in its version dated September 2018 (zip-archive) contains a SDD-structured xml file (for research data), a EML-structured xml file (for research project metadata) and two CSV files, one for the EML data table, one for the GFBio DublinCore (DC) pansimple structured metadata. The GFBio compliant DC metadata are generated via DiversityProjects export and are appropriate to be published via GFBio data pipelines.
Another zip archive for the data in its version dated November 2018 (zip-archive) contains a MOD-CO-structured xml file.
In parallel, the DWB module DiversityCollection was extended to address meta-omics issues in the analysis tables and procedural hierarchies.
For the real life use case " Soil Ecological Data from Ruma National Park Kenya" see dwbC-namespace-structured xml zip-archive, to be published via GFBio ABCD data pipeline.
As part of two projects, MOD-CO and GFBio, the software tool DiversityImageInspector was established.
A generic workflow for sampling environmental samples is described with use case under Sampling with GPS-enabled smartphone and DiversityImageInspector.
All meta-omics use cases will be integrated in the DWB training environment.
