bioxsd.org

BioXSD | BioJSON | BioYAML - Unified exchange formats for biomolecular sequences, features, alignments, references

A unified data model for biomolecular sequences, features, alignments, references. Suitable as exchange formats for Web services, web applications, and programmatic libraries. Is from now on available under the CC BY-SA 4.0. Licence, and developed in its new GitHub repo. This makes the whole BioXSD GTrack. Family of formats licensed under the same open licence, and evolving using transparent and participatory open development. BioXSD GTrack - A service developed by ELIXIR Norway. Highest on the priority ...

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BioXSD | BioJSON | BioYAML - Unified exchange formats for biomolecular sequences, features, alignments, references | bioxsd.org Reviews

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A unified data model for biomolecular sequences, features, alignments, references. Suitable as exchange formats for Web services, web applications, and programmatic libraries. Is from now on available under the CC BY-SA 4.0. Licence, and developed in its new GitHub repo. This makes the whole BioXSD GTrack. Family of formats licensed under the same open licence, and evolving using transparent and participatory open development. BioXSD GTrack - A service developed by ELIXIR Norway. Highest on the priority ...

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1 news

2 the xml schema

3 documentation

4 example data

5 example workflows

6 compliant tools

7 ongoing development

8 credits

9 contact and follow

10 gtrack became open

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news,the xml schema,documentation,example data,example workflows,compliant tools,ongoing development,credits,contact and follow,gtrack became open,gtrack,bioxsd 1 1 xsd,file,licence,data,less restricted,challenge,basic,alignments,feature records,smooth

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BioXSD | BioJSON | BioYAML - Unified exchange formats for biomolecular sequences, features, alignments, references | bioxsd.org Reviews

https://bioxsd.org

A unified data model for biomolecular sequences, features, alignments, references. Suitable as exchange formats for Web services, web applications, and programmatic libraries. Is from now on available under the CC BY-SA 4.0. Licence, and developed in its new GitHub repo. This makes the whole BioXSD GTrack. Family of formats licensed under the same open licence, and evolving using transparent and participatory open development. BioXSD GTrack - A service developed by ELIXIR Norway. Highest on the priority ...

INTERNAL PAGES

bioxsd.org

1

BioXSD-1.1

http://bioxsd.org/technicalDocumentation/BioXSD-1.1

Http:/ bioxsd.org/BioXSD-1.1.xsd. Http:/ bioxsd.org/BioXSD-1.1. Nucleotide sequence, possibly with ambiguous ("degenerate") bases. Http:/ edamontology.org/data 2975 http:/ edamontology.org/format 1210 http:/ edamontology.org/format 1957. Nucleotide sequence, possibly with ambiguous (degenerate) bases. Amino-acid sequence, possibly with ambiguous residues (Asx, Xle, Glx, Xaa/Unk) and additional residues (Pyl and Sec). Nucleotide or amino-acid sequence, possibly with ambiguous bases and residues. Biologica...

2

BioXSD.org - Examples of BioXSD 1.1 feature records

http://bioxsd.org/exampleFeatureRecords.html

Examples of feature data in BioXSD 1.1 format. With extended provenance metadata of BioXSD version 1.1.3).

3

BioXSD-1.0

http://bioxsd.org/technicalDocumentation/BioXSD-1.0

Http:/ bioxsd.org/BioXSD-1.0.xsd. Http:/ bioxsd.org/BioXSD-1.0. Any integer number ( -9.2x10 18 . 9.2x10 18). Represented by a 64-bit (8B) signed long integer (long, long long, int64, same as xs:long, different from xs:integer). 9; Any integer number ( -9.2x10 18 . 9.2x10 18). Represented by a 64-bit (8B) signed long integer (long, long long, int64, same as xs:long, different from xs:integer). 9; . Non-negative integer number (0 . 9.2x10 18). Represented by a 64-bit (8B) signed long integer. Any decim...

4

BioXSD.org - Example workflows

http://bioxsd.org/exampleWorkflows

The source code of this workflow in Java (fully in 1 main. Method), using Axis2 framework for calling Web services and XMLBeans for data binding. Although the source code uses the very verbose XMLBeans data binding and contains a large portion of exception and special-case handling, the data flow. Itself is otherwise very simple thanks to the use of common BioXSD formats of inputs and outputs of the included Web services. The executable Java archive. Run: "java -jar WorkflowNr1.jar"].

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software.ac.uk

Top tips on creating Web Services | Software Sustainability Institute

https://www.software.ac.uk/blog/2013-12-04-top-tips-creating-web-services

Skip to main content. Best of the Blog. Sign up for news. Research Data Viz Workshop. Open Call for Projects. Who Do We Work With? Get up to speed! Where to publish code. Top tips on creating Web Services. Of the Freie Universität Berlin. Of the Software Sustainability Institute. These Top Tips will help you get started. Do not press a button on existing code. Think about the service users. If your code is already in use, think about those who are using it. What are their needs? How do they use it? More ...

github.com

GitHub - bioxsd/bioxsd: A data model for biopolymer/genomic sequences, their alignments, features, metadata, annotation, and related measured or inferred values.

https://github.com/bioxsd/bioxsd

A data model for biopolymer/genomic sequences, their alignments, features, metadata, annotation, and related measured or inferred values. Use Git or checkout with SVN using the web URL. Cannot retrieve the latest commit at this time. Failed to load latest commit information. A data model for biopolymer/genomic sequences, their alignments, features, metadata, annotation, and related measured or inferred values. You can't perform that action at this time. You signed in with another tab or window. Reload.

ws.bioinfo.cnio.es

iHOP - Information Hyperlinked over Proteins

http://ws.bioinfo.cnio.es/iHOP

How to cite iHOP. Quick links for programmers. Valid namespaces list for references. RPC/encoded Taverna 1.3. WS-I 1.0 Basic Profile compliant). WS-I 1.0 Basic Profile compliant). Taverna 1, SOAP. Taverna 2.2.x, SOAP. Taverna 1, BioMOBY INB-dev. Taverna 1, BioMOBY Canada. Taverna 2.2.x, BioMOBY Canada. EMBRACE (BioXSD and EDAM):. BioXSD annotated XML Schema. IHOP server and end user interface are supported and provided by cBio@MSKCC. Without their continuous support, iHOP could not be working just now!

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BioXSD | BioJSON | BioYAML - Unified exchange formats for biomolecular sequences, features, alignments, references

A unified data model for biomolecular sequences, features, alignments, references. Suitable as exchange formats for Web services, web applications, and programmatic libraries. Is from now on available under the CC BY-SA 4.0. Licence, and developed in its new GitHub repo. This makes the whole BioXSD GTrack. Family of formats licensed under the same open licence, and evolving using transparent and participatory open development. BioXSD GTrack - A service developed by ELIXIR Norway. Highest on the priority ...

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