diff options
author | Christoph Helma <helma@in-silico.ch> | 2017-01-25 12:47:49 +0100 |
---|---|---|
committer | Christoph Helma <helma@in-silico.ch> | 2017-01-25 12:47:49 +0100 |
commit | 93d0af1f4049534d26167f7437b8396aeb186762 (patch) | |
tree | 40b7f990cd35ab9c3f6ca4ea926f709829e57ea5 | |
parent | d9a9348a68ecb4e83a3facd5be1d4c54fca09374 (diff) |
corrections for services poster
-rw-r--r-- | markdown_blocks/services_aa.md | 4 | ||||
-rw-r--r-- | markdown_blocks/services_infrastructure.md | 18 | ||||
-rw-r--r-- | markdown_blocks/services_lazar-rest.md | 20 | ||||
-rw-r--r-- | markdown_blocks/services_lazar.md | 25 | ||||
-rw-r--r-- | markdown_blocks/services_nano-lazar-paper.md | 12 | ||||
-rw-r--r-- | markdown_blocks/services_nano-lazar.md | 20 | ||||
-rw-r--r-- | markdown_blocks/services_ontoviewer.md | 8 | ||||
-rw-r--r-- | markdown_blocks/services_qsar-report.md | 22 | ||||
-rw-r--r-- | markdown_blocks/services_sparql.md | 4 | ||||
-rw-r--r-- | markdown_blocks/services_summary.md | 4 |
10 files changed, 75 insertions, 62 deletions
diff --git a/markdown_blocks/services_aa.md b/markdown_blocks/services_aa.md index 44c12d3..b28afa5 100644 --- a/markdown_blocks/services_aa.md +++ b/markdown_blocks/services_aa.md @@ -1,4 +1,4 @@ -IST has conceived, setup and maintained an infrastructure for authentication and authorization. +Infrastructure for eNanoMapper authentication and authorization. * Single sign-on authorization & authentication service - <https://openam.in-silico.ch/openam/>
\ No newline at end of file + <https://openam.in-silico.ch/openam/> diff --git a/markdown_blocks/services_infrastructure.md b/markdown_blocks/services_infrastructure.md index d834dce..ddcc090 100644 --- a/markdown_blocks/services_infrastructure.md +++ b/markdown_blocks/services_infrastructure.md @@ -1,22 +1,22 @@ -IST support the eNanoMapper infrastructure with a brought range of services. +eNanoMapper infrastructure services implemented and maintained by IST. -* Bugzilla Issue tracker (project internal) +* Bugzilla issue tracker for eNanoMapper <https://bugzilla.enanomapper.net/> * Mailman mailing list for partner, developers and associate-partners <http://lists.enanomapper.net/> -* Maintenance for scripts to query the eNM ontology at purl.enanomapper.net - (e.g. <https://purl.enanomapper.net/php/ENM_0000018>) - * Registration form and user management <https://purl.enanomapper.net/register/> +* Online visualization of eNanoMapper specification documents + <http://specs.enanomapper.net> + +* Maintenance for scripts to query the eNM ontology at purl.enanomapper.net + (e.g. <https://purl.enanomapper.net/php/ENM_0000018>) + * LDAP user database server and replication server <ldap.opentox.org> - -* eNanoMapper specification documents online visualization - <http://specs.enanomapper.net> -* Blog entries on eNanoMapper IST specific technical implementation +* Blog entries with technical details about eNanoMapper implementations <http://opentox.github.io/archive> diff --git a/markdown_blocks/services_lazar-rest.md b/markdown_blocks/services_lazar-rest.md index 12f80a3..9a1b028 100644 --- a/markdown_blocks/services_lazar-rest.md +++ b/markdown_blocks/services_lazar-rest.md @@ -1,22 +1,20 @@ -The nano-lazar Rest API interface provides a Restful web service. It is the web service implementation of -the nano-lazar Ruby API for obtaining information on data in the nano-lazar framework and for -performing predictions and descriptor calculations. +`lazar-rest` provides an eNanoMapper compatible REST API for the `nano-lazar` read-across framework -* Nano-lazar REST API GUI. Swagger UI based documentation for API visualization and interaction. - \ +* `lazar-rest` Swagger UI documentation for API visualization and interaction. \cite{rautenberg_micha_2016_187328} <https://enm.in-silico.ch> -* Nano-lazar Swagger API definition file +* `lazar-rest` Swagger API definition file <https://enm.in-silico.ch/api/api.json> -* Nano-lazar REST API services source code repository +* `lazar-rest` source code <https://github.com/opentox/lazar-rest> -* Nano-lazar REST API services gem library\cite{rautenberg_micha_2016_187328} +* `lazar-rest` Ruby gem library <https://rubygems.org/gems/lazar-rest> -* Nano-lazar REST API services Rubydocs gem library documentation +* `lazar-rest` issue tracker + <https://github.com/opentox/lazar-rest/issues> + +* `lazar-rest` API documentation <http://www.rubydoc.info/gems/lazar-rest> -* Nano-lazar REST API issue tracker - <https://github.com/opentox/lazar-rest/issues>
\ No newline at end of file diff --git a/markdown_blocks/services_lazar.md b/markdown_blocks/services_lazar.md index fa870e9..e63888d 100644 --- a/markdown_blocks/services_lazar.md +++ b/markdown_blocks/services_lazar.md @@ -1,14 +1,19 @@ -* Lazar Ruby gem library\cite{helma_christoph_2016_215483} - <https://rubygems.org/gems/lazar> - -* Lazar toxicity prediction UI - <https://lazar.in-silico.ch> +`lazar` is a framework for read-across predictions. Within eNanoMapper `lazar` was extended with interfaces for the eNanoMapper infrastructure and capabilities to predict nanomaterial toxicities. -* Lazar (source code) +* `lazar` source code \cite{helma_christoph_2016_215483} <https://github.com/opentox/lazar> - -* Lazar issue tracker + +* `lazar` Ruby gem library + <https://rubygems.org/gems/lazar> + +* `lazar` issue tracker <https://github.com/opentox/lazar/issues> -* Lazar Rubydocs gem library documentation - <http://www.rubydoc.info/gems/lazar>
\ No newline at end of file +- `lazar` methodology and validation + <https://github.com/enanomapper/nano-lazar-paper/blob/master/nano-lazar.pdf> + +* `lazar` tutorial + <https://github.com/opentox/lazar/blob/master/README.md> + +* `lazar` API documentation + <http://www.rubydoc.info/gems/lazar> diff --git a/markdown_blocks/services_nano-lazar-paper.md b/markdown_blocks/services_nano-lazar-paper.md index dca676a..c61390f 100644 --- a/markdown_blocks/services_nano-lazar-paper.md +++ b/markdown_blocks/services_nano-lazar-paper.md @@ -1,7 +1,13 @@ -IST +Detailed description of `nano-lazar` methods and validation results. Results can be reproduced by external researchers with the accompanying docker image. * Source code for nano-lazar publication (and oral presentations). <https://github.com/enanomapper/nano-lazar-paper> -* Dockerized reproducible nano-lazar paper generation. - <https://hub.docker.com/r/insilicotox/nano-lazar-paper/>
\ No newline at end of file +* Manuscript submitted to Frontiers in Pharmacology + <https://github.com/enanomapper/nano-lazar-paper/blob/master/nano-lazar.pdf> + +* Tutorial for repeating `nano-lazar` validation experiments + <https://github.com/enanomapper/nano-lazar-paper/blob/master/README.md> + +* Docker image for inspection and reproduction of validation experiments + <https://hub.docker.com/r/insilicotox/nano-lazar-paper/> diff --git a/markdown_blocks/services_nano-lazar.md b/markdown_blocks/services_nano-lazar.md index 385654a..3122fda 100644 --- a/markdown_blocks/services_nano-lazar.md +++ b/markdown_blocks/services_nano-lazar.md @@ -1,12 +1,16 @@ -* Nano-lazar for toxicity predictions - graphical user interface\cite{gebele_denis_2017_250818}. - \ +The `nano-lazar` GUI provides a public webinterface for `nano-lazar` models + +* `nano-lazar` public webinterface \cite{gebele_denis_2017_250818}. <https://nano-lazar.in-silico.ch> -* Nano-lazar source code repository +* `nano-lazar` source code <https://github.com/eNanoMapper/nano-lazar> - -* Nano-lazar Rubydocs gem library documentation - <http://www.rubydoc.info/gems/nano-lazar> -* Nano-lazar REST API issue tracker - <https://github.com/eNanoMapper/nano-lazar/issues>
\ No newline at end of file +* `nano-lazar` Ruby gem library + <https://rubygems.org/gems/nano-lazar> + +* `nano-lazar` issue tracker + <https://github.com/eNanoMapper/nano-lazar/issues> + +* `nano-lazar` API documentation + <http://www.rubydoc.info/gems/nano-lazar> diff --git a/markdown_blocks/services_ontoviewer.md b/markdown_blocks/services_ontoviewer.md index ab4cd6c..d50c2d7 100644 --- a/markdown_blocks/services_ontoviewer.md +++ b/markdown_blocks/services_ontoviewer.md @@ -1,10 +1,10 @@ -The eNanoMapper ontology viewer application\cite{gebele_denis_2017_259384} visualizes SPARQL query results from eNM ontologies ad data. +The eNanoMapper ontology viewer visualizes SPARQL query results from eNM ontologies and data. -* eNanoMapper ontology viewer +* eNanoMapper ontology viewer \cite{gebele_denis_2017_259384} <https://query.enanomapper.net/> -* eNanoMapper ontology viewer source code repository +* eNanoMapper ontology viewer source code <https://github.com/enanomapper/enm-ontoviewer> -* eNanoMapper ontology viewer issues +* eNanoMapper ontology viewer issue tracker <https://github.com/enanomapper/enm-ontoviewer/issues> diff --git a/markdown_blocks/services_qsar-report.md b/markdown_blocks/services_qsar-report.md index a347992..d29a97d 100644 --- a/markdown_blocks/services_qsar-report.md +++ b/markdown_blocks/services_qsar-report.md @@ -1,16 +1,16 @@ -The QSAR-report Ruby gem library was developed to extend nano-lazar with QMRF and QPRF reporting features. +QMRF and QPRF reporting features for `nano-lazar`. This library is accessible from the `nano-lazar` GUI and the `lazar-rest` webservices. -* QSAR report - Ruby gem library\cite{rautenberg_micha_2016_179038} for QMRF and QPRF reporting - <https://rubygems.org/gems/qsar-report/> - -* QSAR report - Rubydoc documentation - <http://www.rubydoc.info/gems/qsar-report> - -* QSAR report - Ruby gem library source code +* `qsar-report` source code \cite{rautenberg_micha_2016_179038} <https://github.com/opentox/qsar-report> -* QSAR report - Ruby gem library issue tracker +* `qsar-report` Ruby gem library + <https://rubygems.org/gems/qsar-report/> + +* `qsar-report` issue tracker <https://github.com/opentox/qsar-report/issues> -* QSAR report - Tutorial - <http://opentox.github.io/usage/2016/10/05/qmrf-and-qprf-reporting-library-gem>
\ No newline at end of file +* `qsar-report` tutorial + <http://opentox.github.io/usage/2016/10/05/qmrf-and-qprf-reporting-library-gem> + +* `qsar-report` API documentation + <http://www.rubydoc.info/gems/qsar-report> diff --git a/markdown_blocks/services_sparql.md b/markdown_blocks/services_sparql.md index 0d89a0f..b2a9562 100644 --- a/markdown_blocks/services_sparql.md +++ b/markdown_blocks/services_sparql.md @@ -1,7 +1,7 @@ -A SPARQL query interface for eNanoMapper data and ontologies has been established. +SPARQL query interface for eNanoMapper data and ontologies * SPARQL endpoint <https://sparql.enanomapper.net/> -* Documentation in "Deliverable 3.2 Data Management System with extended search capabilities" - 3.2.3.1. SPARQL endpoint +* Documentation <http://enanomapper.net/deliverables/d3/20160420_eNanoMapper_D3.2_Data_Management_System_with_extended_search_capabilities_FINAL.pdf> diff --git a/markdown_blocks/services_summary.md b/markdown_blocks/services_summary.md index 3b7305c..9f13628 100644 --- a/markdown_blocks/services_summary.md +++ b/markdown_blocks/services_summary.md @@ -1,6 +1,6 @@ During the eNanoMapper project *in silico* toxicologies (IST) public server infrastructure was adapted to the requirements of the eNanoMapper project and -augmented with new developments. This poster will give a comprehensive overview -all IST resources developed within eNanoMapper. Each service will be presented +augmented with new developments. This poster gives a comprehensive overview of +all IST resources developed within eNanoMapper. Each service is presented with a brief description and links to the public interface, source code, documentation and download links for self-contained docker images. |