29 Works

Ambit.Js: Release 0.0.2

Egon Willighagen
Second release: extended support for the Substance API initial support for the Bundle API examples online at http://enanomapper.github.io/ambit.js/ API documentation online at http://enanomapper.github.io/ambit.js/api/

Capturing reuse in altmetrics

Egon Willighagen
A brief idea

Ops4J: Release 0.0.1

Egon Willighagen, StaffanArvidsson & Peter Ansell
First release of the Java client for Open PHACTS that I created some time ago for the R package ("ropenphacts") and the Bioclipse manager. support for the 1.4 and 1.5 API

Deliverable Report D1.1 Requirements Analysis And Systems Design

Barry Hardy Markus Hegi
The objective of WP 1 is, to enable the communication between the eNanoMapper project and the wider nanosafety community and to ensure the alignment of the objectives of eNanoMapper with the needs of the community. At the start of the project, an extensive requirements analysis was conducted and based on the results, an overall system design was worked out. The process was based on the methodology of Contextual Design and included five steps, each building...

ops.js: OPS.js 5.0.0 for Open PHACTS 1.4 API

Ian Dunlop, Egon Willighagen, Elblood, Andrawaag & PANDORINO
Javascript library for requesting information from the Open PHACTS API and parsing responses. Version 5.0.0 is compatible with the 1.4 API (and may be backwards compatible with 1.3 for most API calls). New release created due to change of response from target & compound class pharmacology.

rrdf: Release 2.2.1

Egon Willighagen, Ryan Kohl & Carl Boettiger
This release has the following changes: adds (unit) testing with the testthat package adds a tripleCount(store) method some documentation improvements typo in package description now lists all formats in asString() add.data.triple() and load.rdf() should now stop() when exceptions happen (closes #10) add.data.triple() now checks the data type given sparql.remote() now discusses bif:contains (closes #32) now uses missing() instead of is.null() for input checking (addresses #34)

Rrdf: Release 2.1.2

Egon Willighagen, Richard Zijdeman, Ryan Kohl, Carl Boettiger & Davide Ceolin
This release has the following changes: updated documentation datatypes or properties now also include double, NOTATION, and QName

Deliverable Report D2.3 Ontology Initial Release

Egon Willighagen Janna Hastings
The eNanoMapper project aims to build an ontology and database to collate and describe data relevant for “safe by design” engineered nanomaterial development. Work Package 2 of this effort is developing and disseminating a comprehensive ontology for the nanosafety domain, encompassing nanomaterials and all information relating to their characterization, as well as relevant experimental paradigms, biological interactions and safety information. This deliverable report describes the initial release of the ontology, including the content and organization,...

Rrdf: Release 2.1.2

Egon Willighagen, Richard Zijdeman, Ryan Kohl, Carl Boettiger & Davide Ceolin
This release has the following changes: updated documentation datatypes or properties now also include double, NOTATION, and QName

Rregrs: Release 0.0.3

Cristian R Munteanu, GTsiliki, Egon Willighagen, Jseoane & Carlos Fernandez-Lozano
Fixed to complete the full author list

Rregrs: Version 0.0.5

Cristian R Munteanu, Egon Willighagen, GTsiliki, Jseoane & Carlos Fernandez-Lozano
Bug in function ScalingDS: normalization Incomplete option in function ScalingDS: standarization Bug in plot 4, function SVMRFEreg Bug in function RFRFEreg, removed abs() from resids calculation Bug in function LASSOreg, removed abs() from resids calculation

Deliverable Report D5.4 User Application For Importing Nanosafety Cluster Data

Nikolay Kochev Nina Jeliazkova
The aim of this work is to analyze and choose technical options to implement application and user interfaces for the import of available data from various EU Nanosafety Cluster (EU NSC) projects. Applications are subjected to integrated testing (Task 5.2) and, depending on licenses, data are released for user testing and evaluation (Task 1.4). eNanoMapper has been in contact with various NanoSafety Cluster projects for importing data. Most of this data is expected to be...

Deliverable Raport D4.2 Descriptor Calculation Algorithms And Methods

Georgia Tsiliki Philip Doganis
This deliverable focuses on extensions to the OpenTox descriptor calculation services, in order to account for the supra-molecular pattern (size, shape, porosity and irregularity of the surface area and coatings) governing the activities, effects and properties of ENMs. New descriptors have been derived by applying image analysis techniques on raw microscopy nanomaterial images. The quantummechanical semi-empirical calculation services using the MOPAC open-source software have been adapted and tested on the special requirements of ENM. Experimentally...

Rregrs: Version 0.0.5

Cristian R Munteanu, Egon Willighagen, GTsiliki, Jseoane & Carlos Fernandez-Lozano
Bug in function ScalingDS: normalization Incomplete option in function ScalingDS: standarization Bug in plot 4, function SVMRFEreg Bug in function RFRFEreg, removed abs() from resids calculation Bug in function LASSOreg, removed abs() from resids calculation

BridgeDb: BridgeDb 2.1.2 Open PHACTS internal release

Egon Willighagen, Christian Y. Brenninkmeijer, Alexander Pico, Martina Summer-Kutmon & JonathanMELIUS
Internal BridgeDB release for Open PHACTS 2.0. Also available from myGrid's Maven repository Build info: http://build.mygrid.org.uk/ci/view/OpenPHACTS/job/ops-BridgeDb/59/

ops.js: OPS.js 5.0.2 for Open PHACTS 1.5 API

Ian Dunlop, Egon Willighagen, Elblood, Andrawaag, Stian Soiland-Reyes & PANDORINO
Javascript library for requesting information from the Open PHACTS API and parsing responses. Version 5.0.2 is compatible with the Open PHACTS 1.5 API (and should be backwards compatible with 1.4 for most API calls). This is the last of the jquery based OPS.js, future versions will be NodeJS based.

ops.js: OPS.js 6.0.1 for Open PHACTS 1.5 API

Ian Dunlop, Egon Willighagen, Elblood, Andrawaag, Stian Soiland-Reyes & PANDORINO
NodeJS based JavaScript library for requesting and parsing information from the Open PHACTS API. Version 6.0.1 is compatible with the Open PHACTS 1.5 API (and should be backwards compatible with 1.4 for most API calls). This is the first release of the NodeJS based OPS.js which can run in either a browser or a NodeJS based server side app.

ops.js: OPS.js 6.0.2 for Open PHACTS 1.5 API

Ian Dunlop, Egon Willighagen, Elblood, Andrawaag, Stian Soiland-Reyes & PANDORINO
NodeJS based JavaScript library for requesting and parsing information from the Open PHACTS API. Version 6.0.2 is compatible with the Open PHACTS 1.5 API (and should be backwards compatible with 1.4 for most API calls).

RRegrs: Release 0.0.4

Cristian R Munteanu, Egon Willighagen, GTsiliki, Jseoane & Carlos Fernandez-Lozano
This release: adds testing using the testthat package removed the dependency on doMC so that it should install on Windows now (where doMC is not available) added the tutorial PDF so that it is part of the distribution now allows absolute paths now to point to the data adds additional parameter value checking

BridgeDb: BridgeDb 2.1.0 released

Egon Willighagen, Christian Y. Brenninkmeijer, Alexander Pico & Martina Summer-Kutmon
ChangeLog 2.1.0 (2015-08-06) Update SwissLipids, BRENDA and wikidata Update InChiKey to PRIMARY id Fix designations for KEGG Reactome and PubChem-bioassay Added the InChIKey as DataSource, allowing at some point WikiPathways to be searched on InChIKey Added SwissLipids Added more detail on how to get DataSource's Also compiles the BatchMapper now Added 'Plasmodium falciparum' to the Organism enumeration Added alternative methods that allow getting attributes not just from the data source of the Xref, but from...

ops.js: OPS.js 6.1.2 for Open PHACTS 1.5 API

Ian Dunlop, Egon Willighagen, Elblood, Andrawaag, Stian Soiland-Reyes & PANDORINO
NodeJS based JavaScript library for requesting and parsing information from the Open PHACTS API. Version 6.1.2 is compatible with the Open PHACTS 1.5 API (and should be backwards compatible with 1.4 for most API calls).

ops.js: OPS.js 6.1.3 for Open PHACTS 1.5 API

Ian Dunlop, Egon Willighagen, Elblood, Andrawaag, Stian Soiland-Reyes & PANDORINO
NodeJS based JavaScript library for requesting and parsing information from the Open PHACTS API. Version 6.1.3 is compatible with the Open PHACTS 1.5 API (and should be backwards compatible with 1.4 for most API calls).

RRegrs: Release 0.0.5

Georgia Tsiliki, Cristian R. Munteanu, José A. Seoane, Carlos Fernandez-Lozano, Haralambos Sarimveis & Egon Willighagen
Bug in function ScalingDS: normalization Incomplete option in function ScalingDS: standarization Bug in plot 4, function SVMRFEreg Bug in function RFRFEreg, removed abs() from resids calculation Bug in function LASSOreg, removed abs() from resids calculation

Deliverable Report D3.1 Technical Specification And Initial Implementation Of The Protocol And Data Management Web Services

Bengt Fadeel Philip Doganis
We reviewed the current state of the art of availability and requirements for nanomaterial databases, through reviewing the literature, online resources, engaging in discussions with the NanoSafety Cluster working groups and using the results of a community-based requirement analysis. The eNanoMapper data architecture was developed and consists of a set of web services, providing access to experimental protocols and data, search service and modules, facilitating linking and data transfer between third party databases. This design...

Enabling Open Science: Wikidata for Research

Daniel Mietchen, Gregor Hagedorn, Egon Willighagen, Mariano Rico, Asuncion Gomez-Perez, Eduard Aibar, Karima Rafes, Cécile Germain, Alastair Dunning, Lydia Pintscher, Daniel Kinzler & Anonymous
Wiki4R will create an innovative virtual research environment (VRE) for Open Science at scale, engaging both professional researchers and citizen data scientists in new and potentially transformative forms of collaboration. It is based on the realizations that (1) the structured parts of the Web itself can be regarded as a VRE, (2) such environments depend on communities, (3) closed environments are limited in their capacity to nurture thriving communities. Wiki4R will therefore integrate Wikidata, the...

Resource Types

  • Software
    21
  • Text
    8

Publication Year

  • 2015
    29

Registration Year

  • 2017
    8
  • 2015
    21

Data Centers

  • ZENODO - Research. Shared.
    29