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Showing 2916 results. Use the filters on the left and the search box below to refine the results.
Taverna 2
Uploader
1253?size=60x60 Gb Anja Le Blanc

Workflow Number of recorded features in catalogue p... (1)

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The number of features of the specified catalogue are counted per month between beginning of the year_start und the end of the year_end. Return format is VOTable

Created: 2012-08-22

Credits: User Anja Le Blanc

Taverna 2
Uploader
2485?size=60x60 Gb Rafael C. Jimenez

Workflow Get a list of proteins annotated with an O... (3)

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A service to look for models in BioModels using an Ontology Id as input. First the workflow will look in QuickGO for UniProt accessions annotated with the provided Ontology Id. Then it will look for models using the list of proteins. If one of the input protein is found in one model the workflow will provide the BioModels Id, the SBML and a link to the BioModels database. Please use taverna 2.4 or above.

Created: 2012-08-22 | Last updated: 2013-07-10

Credits: User Rafael C. Jimenez

Taverna 2
Uploader
2485?size=60x60 Gb Rafael C. Jimenez

Workflow Get models from BioModels including the in... (3)

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A service to look for models in BioModels using a UniProt accession as input. If the input protein is found in one model the workflow will provide the BioModels Id, the SBML and a link to the BioModels database. Please use taverna 2.4 or above.

Created: 2012-08-22 | Last updated: 2012-08-24

Credits: User Rafael C. Jimenez

Taverna 2
Uploader
1253?size=60x60 Gb Anja Le Blanc

Workflow Number of features in a month in a year (1)

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Returns the number of features in a HFC catalogue which occured in a month in a year given as inputs.

Created: 2012-08-21

Credits: User Anja Le Blanc

Taverna 2
Uploader
3689?size=60x60 Es Julian Garrido

Workflow Create votable from different galfit param... (2)

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The workflow creates a votable from the results provided by galfit. It returns this table and an aditional table that is joined to the input table. It requires a votable that contains a column with the file name resulting from running galfit and such files must be accesible from taverna. It uses astrotaverna plugin (http://wf4ever.github.com/astrotaverna/) and it has a dependency on stil library (http://www.star.bris.ac.uk/~mbt/stil/). The galfit files may come from adjusting 'disk, bulb, ba...

Created: 2012-08-21 | Last updated: 2012-09-07

Credits: User Julian Garrido

Taverna 2
Uploader
Avatar Harish Dharuri

Workflow Create_SNP_Set (1)

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The purpose of the workflow is to determine SNPs in the vicinity of the genes and create a SNP set for a given set of genes. The user has the freedom to choose the flanking width around the gene for determining the SNPs. The input is in the form of entrez gene ids. Biomart services are used to determine the chromosome and position of the gene as well as determining Affy gene chip 6k ids. The final report is stored as a tab-delimited text file with Affy 6 gene chip ids for the SNP and Kegg inf...

Created: 2012-08-21

Credits: User Harish Dharuri

Taverna 2
Uploader
Avatar Harish Dharuri

Workflow Kegg:Reactions Scheme (2)

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The purpose of this workflow is to determine all the enzymes/genes that participate in a radius of 2 reaction steps around a given metabolite. Broadly, the scheme involves the following steps: 1. determine all the reactions that the given metabolite participates in 2. determine all the compounds that participate in these reactions 3. filter certain compounds like H2O, ATP etc to avoid non-specific connections 4. determine all the reactions that the compounds passing through step 3 participate...

Created: 2012-08-20 | Last updated: 2013-08-27

Credits: User Harish Dharuri

Taverna 2
Uploader
1253?size=60x60 Gb Anja Le Blanc

Workflow Check HEC instances for diverging content (2)

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This workflow check all tables in HEC on festung1 and festung3 for diverging content by comparing the last 1000 entries in each table. Output is a list of tabel names with different content.

Created: 2012-08-20 | Last updated: 2012-08-20

Credits: User Anja Le Blanc

Taverna 2
Uploader
1405?size=60x60 At Sven

Workflow Hadoop Large Document Collection Data Prep... (1)

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Workflow for preparing large document collections for data analysis. Different types of hadoop jobs (Hadoop-Streaming-API, Hadoop Map/Reduce, and Hive) are used for specific purposes. The *PathCreator components create text files with absolute file paths using the unix command 'find'. The workflow then uses 1) a Hadoop Streaming API component (HadoopStreamingExiftoolRead) based on a bash script for reading image metadata using Exiftool, 2) the Map/Reduce component (HadoopHocrAvBlockWidthMapR...

Created: 2012-08-17 | Last updated: 2012-08-18

Credits: User Sven

Taverna 2
Uploader
Avatar Harish Dharuri

Workflow KEGG:Pathway Scheme (2)

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The purpose of the workflow is to determine all the genes operating in the pathways that the input metabolite participates in. The overall idea is to generate a set of genes that potentially influence the levels of a metabolite due to the common pathways that they share.

Created: 2012-08-14 | Last updated: 2013-08-27

Credits: User Harish Dharuri

Taverna 2
Uploader
3381?size=60x60 Es Susana

Workflow Gathering info from SDSS into a VOTable to... (4)

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This workflow joins two main nested workflows: - "Extract SDSS field information and PSF" workflow, which gathers information from SDSS VO service and from the header image in several VOtable. It also generates the psf files. - "Joining VOtables with information to execute Sextractor, Galfit and Ellipse" workflow, which joins the VOtables generated by the previous workflow to get only one VOtable with all the information

Created: 2012-08-13 | Last updated: 2013-03-08

Credits: User Susana

Taverna 2
Uploader
3381?size=60x60 Es Susana

Workflow Joining VOtables with information to execu... (3)

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This workflow join 13 votables, obtained from the workflow "Extract SDSS field information and PSF" in order to get a only one votable with all the information. Also it adds the columns "zp", "magzeropoint", xconvsize, yconvsize that are calculated from values provided in the inputs. The zp is -( aa + kk * airmass ), the magzeropoint is zp + 2.5 * log10(53.907456), the xconvsize is roundUp(nx/10) and the yconvsize is roundUp(ny/10)

Created: 2012-08-13 | Last updated: 2013-03-08

Credits: User Susana

Taverna 2
Uploader
3381?size=60x60 Es Susana

Workflow Convert a list into a VO Column (2)

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This workflow converts a list of values into a VO table with only one column. It receives two inputs: the list of values and the header name of the column to be built.

Created: 2012-08-13 | Last updated: 2013-03-08

Credits: User Susana

Taverna 2
Uploader
Avatar Julien wollbrett

Workflow Oryza Sativa QTLs and genes retrieval from... (2)

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For a given trait and QTL maximum size, retrieve accession numbers of the QTLs along with their mapping positions in Oryza sativa and retrieve genes present in the mapping genomic interval of a given QTL. Data integration from TropGene, Gramene and Ensembl relational databases. Semi-automatic creation of 7 Semantic Web Services for TropGene and Gramene with BioSemantic Use of BioMart Web Services for Ensembl interrogation

Created: 2012-08-08 | Last updated: 2012-09-28

Credits: User Julien wollbrett

Taverna 2
Uploader
1405?size=60x60 At Sven

Workflow Hadoop hOCR parser (1)

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Big data processing: chaining Hadoop jobs using Taverna. This workflow demonstrates a simple way of linking different hadoop job components using the standard output of the hadoop jobs. It is not for thought for productive use, but for demonstration using small data sets. The code for the hadoop jobs is available on Github: tb-lsdr-hocrparser and tb-lsdr-seqfilecreator.

Created: 2012-08-07 | Last updated: 2012-08-07

Credits: User Sven

Taverna 2
Uploader
3689?size=60x60 Es Julian Garrido

Workflow Calculate ellipses that describe a galaxy ... (2)

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This workflow calculates the ellipses that better match a galaxy by doing two iterations. In the first one the center and the outer ellipse are aproximated because there might be bars that affect to the inner ellipses. In the second one, files with the ellipse data are built. It creates ellipse scripts using data from a votable, it runs ellipse, its results are added to the votable, it creates new scripts for ellipse using the previous results, it runs ellipse a second time and it finally in...

Created: 2012-08-07 | Last updated: 2012-09-11

Credits: User Julian Garrido

Attributions: Workflow Create configuration files from a template and a votable Workflow Run scripts from a column in a votable Workflow Create votable from ellipse results Workflow Detect ellipse failures and get votable without ellipse failures

Taverna 2
Uploader
3689?size=60x60 Es Julian Garrido

Workflow Create votable from ellipse results (2)

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The workflow takes from a votable the names of files where the ellipse result is stored. These files contain data for several ellipses and the workflow takes the center from the inner ellipse and the ellipticitiy from one of the outter ones. It uses astrotaverna plugin (http://wf4ever.github.com/astrotaverna/).

Created: 2012-08-07 | Last updated: 2012-09-07

Credits: User Julian Garrido

Taverna 2
Uploader
3689?size=60x60 Es Julian Garrido

Workflow Run scripts from a column in a votable (2)

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It runs scripts whose pathname are values of a column in a votable

Created: 2012-08-07 | Last updated: 2012-09-07

Credits: User Julian Garrido

Vistrails
Uploader
3400?size=60x60 Gb Khalid Belhajjame

Workflow Gene_To_Pathways (Vistrails) (1)

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This workflow retrieves the pathways that are associated with given Kegg gene identifiers.

Created: 2012-08-06 | Last updated: 2012-08-08

Credits: User Khalid Belhajjame

Vistrails
Uploader
3400?size=60x60 Gb Khalid Belhajjame

Workflow Gene_To_Pathways (Vistrails) (1)

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This workflow retrieves the pathways that are associated with given Kegg gene identifiers.

Created: 2012-08-06 | Last updated: 2012-08-08

Credits: User Khalid Belhajjame

Vistrails
Uploader
3400?size=60x60 Gb Khalid Belhajjame

Workflow Gene_To_Pathways (Vistrails) (1)

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This workflow retrieves the pathways that are associated with given Kegg gene identifiers.

Created: 2012-08-06 | Last updated: 2012-08-08

Credits: User Khalid Belhajjame

Taverna 2
Uploader
3400?size=60x60 Gb Khalid Belhajjame

Workflow Gene_To_Pathways (1)

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 This workflow identifier the pathways that are associated with given Kegg gene identifiers. Example inputs that can be used to run the workflow are eco:b0002, eco:b0078

Created: 2012-08-06 | Last updated: 2012-09-07

Credits: User Khalid Belhajjame User Stian Soiland-Reyes

Attributions: Workflow Hello Anyone

Taverna 2
Uploader
3655?size=60x60 Nl Magnus Palmblad

Workflow de Bruin et al. Workflow 4 (1)

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This is "Workflow 4" from de Bruin et al., Mol. Cell. Proteomics 2012.

Created: 2012-08-01 | Last updated: 2012-08-01

Credits: User Magnus Palmblad

Taverna 2
Uploader
3655?size=60x60 Nl Magnus Palmblad

Workflow de Bruin et al. Workflow 3 (1)

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This is "Workflow 3" from de Bruin et al., Mol. Cell. Proteomics 2012.

Created: 2012-08-01 | Last updated: 2012-08-01

Credits: User Magnus Palmblad

Taverna 2
Uploader
3655?size=60x60 Nl Magnus Palmblad

Workflow de Bruin et al. Workflow 2 (1)

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This is "Workflow 2" from de Bruin et al., Mol. Cell. Proteomics 2012.

Created: 2012-08-01 | Last updated: 2012-08-01

Credits: User Magnus Palmblad

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Funded by: BioVeL, EPSRC, JISC, Microsoft

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