Workflows

Anatomical Atlas Generation (1)

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Computes an anatomical atlas based on a set of patient images using registration methods. This workflow is automatic and does not require user interaction. The anatomical atlas is composed of a mean image and the set of transformations for each patient's between the mean image and the patient image. The atlas can be used to segment the mean image once and propagate the segmentation results to each patient image automatically. This workflow has been tested using GIMIAS-1.5 (open source) with ...

Created: 2012-05-29 | Last updated: 2012-05-29

Credits: Gimias

[untitled] (1)

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No description

Created: 2012-06-02 | Last updated: 2012-06-02

Credits: Neroptit

Image Characterisation - Fits (Extended) (1)

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Extracts metadata from images.

Created: 2012-06-06 | Last updated: 2012-06-06

Credits: Markus Plangg

Gaussian Blur (1)

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Convolves the image with a Gaussian kernel wherein the Gaussian has a standard deviation specified by the user ("sigma") and the kernel width in each dimension is 6 times the standard deviation of the Gaussian. You can find more details here

Created: 2012-06-13 | Last updated: 2012-06-13

ASA_IM__0P (1)

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No description

Created: 2012-06-13 | Last updated: 2012-06-13

Credits: Joel Wright

[untitled] (1)

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No description

Created: 2012-06-13 | Last updated: 2012-06-13

Credits: Joel Wright

DatabaseID to ConceptID (7)

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Purpose: This workflow maps input Identifiers, common database identifiers, to the Concept Identifiers from the EMC ontology. Result: Concept Identifiers from the EMC ontology. Comments: Database: one of CAS, DRUG, etc. The supported databases are listed below (database, description, example). CAS, Chemical Abstracts Service registry number, 64-17-5. DRUG, Drug Bank, DB00316. AF, Affymetrix, 200007_at. CHEB, ChEBI, 16236. CHID, ChemIDplus, 0000050000. EG, Entrez-Gene, 3064. GO, Gene Ontol...

Created: 2012-06-25 | Last updated: 2014-07-14

Credits: Marco Roos Martijn Schuemie Reinout van Schouwen BioSemantics

SNP_ID2EntrezGene_ID (4)

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Purpose: The workflow maps a SNP (dbSNP id) to a gene (EntrezGene id). Author comments: The window for gene inclusion can be set using the set_width parameter. This workflow can be used together with other workflows in this pack: http://www.myexperiment.org/packs/282 for functional gene and SNP annotation and knowledge discovery.

Created: 2012-06-26 | Last updated: 2013-03-11

Credits: Kristina Hettne Harish Dharuri

Find Supporting Documents (6)

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This workflow finds documents that serve as evidence for the association between two concepts. Results: Document titles Document identifiers There seems to be a bug at the moment, since it returns empty values.

Created: 2012-06-26 | Last updated: 2014-07-14

Credits: Kristina Hettne Marco Roos Reinout van Schouwen Martijn Schuemie BioSemantics

Find periods of time where two ILS objects... (2)

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Inputs: name of target_obj of ILS of two objects and a number of degrees which these obejcts are allowed to be appart in hci longitude coordinates. Output VOTable of time periods where these two objects are closer than +/- input angle together.

Created: 2011-11-04 | Last updated: 2011-11-18

Credits: Anja Le Blanc