User: Pieter Neerincx

Name: Pieter Neerincx

Joined: Monday 25 February 2008 @ 12:55:28 (GMT)

Last seen: Friday 18 September 2009 @ 14:07:28 (GMT)

Email (public): Not specified

Website: Not specified

Location: Wageningen, Netherlands

10 Friends

1 Group (admin)

6 Groups (member)

7 Workflows

0 Favourites

Pieter Neerincx has been credited 8 times

Pieter Neerincx has an average rating of:

5.0 / 5

(1 rating in total)

for their items

I have added my ‘abstract’ for the NBIC workshop ‘NBIC on workflows’ as a blog: http://www.myexperiment.org/blogs/26

Other contact details:

Not specified

Interests:

BioMoby web services
Taverna
Micro array probe design & annotation
Genome annotation
Text mining & data mining in general

Field/Industry: Biology

Occupation/Role(s): PhD student

Organisation(s):

Wageningen University & Research centre
Laboratory of Bioinformatics

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Taverna 1 Original Uploader Pieter Neerincx	AffyArrayNormalization (v2) Created: 16/02/09 @ 16:32:36 \| Last updated: 16/02/09 @ 16:42:10 Credits: Pieter Neerincx Philipg License: Creative Commons Attribution-Share Alike 3.0 Unported License The AffyArrayNormalization web services normalise raw Affymetrix GeneChip data. They are wrappers around Philip de Groot's normalization R script to provide remote programmatic access. This example workflow demonstrates the use of the AffyArrayNormalization services. The flow is as follows: A client executes the AffyArrayNormalization_submit service with two inputs: a User object and a collection of URLs linking to CEL files. The User object contains a user ID, a password and an ... Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 211 times \| Downloaded: 90 times Tags (6): affymetrix \| biomoby \| microarray \| normalization \| nugo \| r	View Download (v2)
Taverna 1 Original Uploader Pieter Neerincx	AffyArrayQualityAnalysis (v2) Created: 13/03/08 @ 14:38:03 \| Last updated: 16/02/09 @ 16:41:29 Credits: Pieter Neerincx Philipg License: Creative Commons Attribution-Share Alike 3.0 Unported License The AffyArrayQualityAnalysis web services provide quality control for raw Affymetrix GeneChip data. They are wrappers around Philip de Groot's quality control R script to provide remote programmatic access. This example workflow demonstrates the use of the AffyArrayQualityAnalysis services. The flow is as follows: A client executes the AffyArrayQualityAnalysis_submit service with two inputs: a User object and a collection of URLs linking to CEL files. The User object contains a u... Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 2 \| Citations: 0 Viewed: 186 times \| Downloaded: 58 times Tags (6): affymetrix \| biomoby \| microarray \| nugo \| quality control \| r	View Download (v2)
Taverna 1 Original Uploader Pieter Neerincx	myExperimentBeanshellCollection (v2) Created: 06/03/08 @ 11:46:11 \| Last updated: 25/03/08 @ 16:23:24 Credits: myExperimentBeanshellCollection License: Creative Commons Attribution-Share Alike 3.0 Unported License Public collection of generic Beanshells curated by the myExperimentBeanshellCollection group on myExperiment. Visit http://www.myexperiment.org for details and updates. To use this collection of beanshells in Taverna: Right click "Available Processors" in the "Design Perspective" Choose "Add new Workflow scavenger..." Provide the URL to this beanshell collection on www.myExperiment.org or if you downloaded this to your hard disk, provide a "file" URL to the absolute path of this file (O... Rating: 5.0 / 5 (1 rating) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 207 times \| Downloaded: 106 times Tags (2): beanshell \| shim	View Download (v2)
Taverna 1 Original Uploader Pieter Neerincx	GeneIlluminator_GetPubMedQuery (v2) Created: 27/02/08 @ 00:49:44 \| Last updated: 03/03/08 @ 22:08:39 Credits: Pieter Neerincx Alako License: Creative Commons Attribution-Share Alike 3.0 Unported License Example workflow demonstrating how to use GeneIlluminator_GetPubMedQuery, a synchronous BioMOBY service for gene symbol disambiguation. If a gene symbol is ambiguous this service uses GeneIlluminator to create clusters describing which different genes, sharing the same symbol, exist in different parts of the tree of life. GeneIlluminator provides also aliases associated to the input gene symbol. Finally, using the cluster characteristics it creates a boolean PubMed query that could be used to... Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 89 times \| Downloaded: 42 times Tags (5): biomoby \| disambiguation \| gene symbol \| pubmed \| text mining	View Download (v2)
Taverna 1 Original Uploader Pieter Neerincx	GeneIlluminator_GetGraph (v2) Created: 27/02/08 @ 00:48:39 \| Last updated: 03/03/08 @ 22:10:54 Credits: Pieter Neerincx Alako License: Creative Commons Attribution-Share Alike 3.0 Unported License Example workflow demonstrating how to use GeneIlluminator_GetGraph, a synchronous BioMOBY service for gene symbol disambiguation. If a gene symbol is ambiguous this service uses GeneIlluminator to create clusters describing which different genes, sharing the same symbol, exist in different parts of the tree of life. GeneIlluminator provides also aliases associated to the input gene symbol. Finally, a graphical overview of the clusters and gene symbols is created in SVG format and returned to ... Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 62 times \| Downloaded: 33 times Tags (5): biomoby \| disambiguation \| gene symbol \| svg \| text mining	View Download (v2)
Taverna 1 Original Uploader Pieter Neerincx	GeneIlluminator_GetClusters (v2) Created: 27/02/08 @ 00:46:22 \| Last updated: 03/03/08 @ 22:11:17 Credits: Pieter Neerincx Alako License: Creative Commons Attribution-Share Alike 3.0 Unported License Example workflow demonstrating how to use GeneIlluminator_GetClusters, a synchronous BioMOBY service for gene symbol disambiguation. If a gene symbol is ambiguous this service provides GI_Clusters describing which different genes, sharing the same symbol, exist in different parts of the tree of life. Provides also gene symbol aliases associated to the input gene symbol. (Use GeneIlluminator_GetGraph for a graphical representation of the clusters or GeneIlluminator_Disambiguate to get the mos... Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 68 times \| Downloaded: 33 times Tags (4): biomoby \| disambiguation \| gene symbol \| text mining	View Download (v2)
Taverna 1 Original Uploader Pieter Neerincx	GeneIlluminator_Disambiguate (v2) Created: 27/02/08 @ 00:43:33 \| Last updated: 03/03/08 @ 22:11:50 Credits: Pieter Neerincx Alako License: Creative Commons Attribution-Share Alike 3.0 Unported License Example workflow demonstrating how to use GeneIlluminator_Disambiguate, a synchronous BioMOBY service for gene symbol disambiguation. If a gene symbol is ambiguous this service provides GI_Clusters describing which different genes, sharing the same symbol, exist in different parts of the tree of life. Provides also gene symbol aliases associated to the input gene symbol. (This is the same output as the one from the GeneIlluminator_GetClusters service.) In addition this service takes an Organi... Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 113 times \| Downloaded: 38 times Tags (4): biomoby \| disambiguation \| gene symbol \| text mining	View Download (v2)