The document summarizes various tools and resources provided by LifeWatch Greece including a portal, virtual labs (vLabs), and mobile applications. The LifeWatch Greece portal provides access to biodiversity data and applications including e-services for searching data and one-shot analyses. Key vLabs described are RvLab for parallelizing R analyses, a microCT vLab for manipulating specimen scans, and a semantic web lab. Mobile apps allow access toRvLab and microCT tools as well as citizen science and medOBIS projects.

1. 111/11/2015
LifeWatch - EGI
Competence Centre
EGI Community Forum – Bari 2015
Observatories: VREs and Data portals
LifewatchGreece Portal:
Semantic web with Data services,
Parallelizing R with RvLab,
Manipulating specimens with MicroCT
By Emmanouela Panteri
Contributors:N.Minadakis,Y.Marketakis, C.Bekiari, M.Doerr,
A.Gougousis, A.Oulas, K.Keklikoglou,
I.Filiopoulou, N.Michalakis, C.Arvanitidis

2. 211/11/2015
LifeWatch Greece e-infrastructure
LWG e-infrastructure:
● Multi-server e-infrastructure currently
deployed in HCMR, Crete
● Hosts biodiversity data and applications
Applications:
● e-services: searching datasets/ data or
one-shot analyses
● vLabs: interfaces for advanced
selection of datasets/data, and more
elaborated suites of analyses

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Accessed by: LifeWatch Greece Portal
https://portal.lifewatchgreece.eu/

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Accessed by: LifeWatch Greece Portal
https://portal.lifewatchgreece.eu/

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LifeWatch Greece Portal vLabs
Semantic web with
Data services
Parallelizing R with
RvLab
Manipulating specimens
with MicroCT

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The Problem
Main characteristics of biodiversity data:
● its cross-disciplinary character.
● Extremely broad range of data types
and structures.(xls, csv, DwC Archives
etc)
● Broad variety of semantic concepts
which encompasses.
● It remains widely distributed and
unconnected.
http://metacatalogue.portal.lifewatchgreece.eu/

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The goal
Our goal in the context of LWGreece:
● Support cataloguing and
publishing of all the relevant meta-
data information of the Greek
biodiversity domain.
● Integrate data from heterogeneous
sources by supporting the definitions
of appropriate models.
● Efficiently discover biodiversity
data of interest and provide replies to
complex queries that could not be
answered from the individual
sources.
http://metacatalogue.portal.lifewatchgreece.eu/

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The idea
http://metacatalogue.portal.lifewatchgreece.eu/
Exploit the events’ information
that is explicitly or implicitly
contained in the datasets, model
the different concepts and
entities of the biodiversity
domain and take advantage of
the semantic graph’s
capabilities to navigate efficiently
through the different contents
and discover data of interest.

9. 911/11/2015
Design and implementation
3 Components Architecture:
1) Directory Service
2) Metadata Repository
3) Content Storage
More than 20 Web Services.
1) Publishing Metadata/Data
2) Searching Metadata
3) Discovering Data
4) Browsing Services
5) Mapping Services
6) Transforming Metadata
7) Annotation Services
http://metacatalogue.portal.lifewatchgreece.eu/

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Search Data
http://metacatalogue.portal.lifewatchgreece.eu/

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Publish data
http://metacatalogue.portal.lifewatchgreece.eu/

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LifeWatch Greece Portal vLabs
Semantic web with
Data services
Parallelizing R with
RvLab
Manipulating specimens
with MicroCT

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R Virtual-LABoratory basics
● Ecological/biological interest
● Offer statistical and visualization tools for LifeWatch ESFRI, using R
statistical language.
Main Objective:
● Optimize certain VEGAN package functions (Community Ecology
Package), which supports, clustering and ordination methods, diversity
analysis and other functions for community and vegetation ecologists.
More specific issues addressed are:
● Big data manipulation (overcome memory barriers)
● Computational time speed-up (task segmentation multi-cores, cluster
computing environment at HCMR – recently upgraded from LlifeWatch)
● Develop an efficient and friendly user interface for analysis of ecological
community data.
http://rvlab.portal.lifewatchgreece.eu/

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RvLAB file types
http://rvlab.portal.lifewatchgreece.eu/

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RvLAB main page
http://rvlab.portal.lifewatchgreece.eu/

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RvLAB main page
http://rvlab.portal.lifewatchgreece.eu/
Workspace
area
Submitted
Jobs area
Functions
area

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RvLAB functions
http://rvlab.portal.lifewatchgreece.eu/

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RvLAB Jobs

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RvLAB Jobs results
Jobs Results

20. 2011/11/2015
LifeWatch Greece Portal vLabs
Semantic web with
Data services
Parallelizing R with
RvLab
Manipulating specimens
with MicroCT

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Micro-Computed Tomography
Exterior parts
Interior parts
MicroCT offers:
● Collection of virtual galleries of scanned
taxa, displayed and disseminated
● Manipulation of the 3D models through a
series of online tools
● Ability to download the datasets for local
manipulations

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MicroCT main page
MicroCT main page Specimen Details
http://microct.portal.lifewatchgreece.eu/

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MicroCT offers
Medadata
Video
Visualisation

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LifewatchGreece Mobile Applications

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Mobile Applications
Citizen Science MicroCT
medOBIS
RvLab

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RvLab Mobile app workflow

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MicroCT vlab Mobile app workflow

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Thank you