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Cloud Parallel Processing of Tandem Mass S... (1)

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A workflow for searching LC−MS/MS mass spectrometry data using X!Tandem on the cloud. The workflow consists of 5 processors. The objectLogic processor prepares all inputs in the right format, i.e. keeping or converting strings into file object according to the following processor. The mzxmlDecomposer and pepxmlComposer run the decomposing/recomposing algorithms. objectLogic, mzxmlDecomposer and pepxmlComposer are Beanshell processors and they run locally. Xtandem runs X!Tandem on a remo...

Created: 2012-09-10

Credits: Yassene

Detect ellipse failures and get votable wi... (1)

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It detects if ellipse has failed by checking if the resulting data file exists. It adds a column (validellipse) that contains 1 if ellipse didn't fail and 0 if ellipse failed. It returns a votable that contains all the data with the new column and a votable that contains only the rows where ellipse didn't failed. It uses astrotaverna plugin (http://wf4ever.github.com/astrotaverna/).

Created: 2012-09-07

Credits: Julian Garrido

xlmPath (2)

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xml path

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

LASCO_CME_QUERY (2)

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This workflows queries the LASCO CME list and returns a VOTable with the following fields pa, pa_width, v_final and v_diff which is abs(v_init-v_final)/2

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

Credits: Baptiste Cecconi

Attributions: Extract content of columns from VOTables

Get SecchiRH composites images (1)

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 This workflow extracts the composite image from the http://secchirh.obspm.fr survey page.

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

Credits: Baptiste Cecconi

LASCO_CME_QUERY (1)

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This workflows queries the LASCO CME list and returns a VOTable with the following fields pa, pa_width, v_final and v_diff which is abs(v_init-v_final)/2

Created: 2012-09-05

Credits: Gab Eoincar Anja Le Blanc

SNP Workflow (1)

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This workflow extracts information about the position of SNPs and the genes they are associated with

Created: 2012-09-05

Credits: Vishalkpp

SNP Workflow (1)

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This workflow extracts information about the position of SNPs and the genes they are associated with

Created: 2012-09-05

Credits: Aishualex

[untitled] (1)

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complete part one of assignment

Created: 2012-09-05 | Last updated: 2012-09-05

Credits: Mcasfrox

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Assignment Data - suggested SNPs

Created: 2012-09-05 07:20:29 | Last updated: 2012-09-05 07:22:16

Credits: Helen Hulme

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Plain text

Comments: 0 | Viewed: 41 times | Downloaded: 30 times

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READ_MULTI_FASTA_FILE (1)

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Read multi fasta file and split into a list of fasta sequences

Created: 2012-09-04 | Last updated: 2012-09-04

Credits: Mcasfrox

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Sudoku solving with RapidMiner (Who Wants to be a Da...

Created: 2012-09-04 16:56:44 | Last updated: 2012-09-04 16:58:26

5 items in this pack

Comments: 0 | Viewed: 111 times | Downloaded: 78 times

RCOMM 2012 Sudoku Challenge: 4 - Solve Sudoku (1)

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Process from the http://rcomm2012.org live data mining challenge. The task was to partially solve a Sudoku puzzle by solving three subtasks. Processes 1-3 in this pack are the actual solutions to the tasks, process 0 loads the required data into your repository and process 4 is the bonus that solves the entire puzzle. Finally, this process solves the entire Sudoku. It uses process 3 to add inferred cell values to the set of predefined values. It does so repeatedly until 81 values are defined...

Created: 2012-09-04

RCOMM 2012 Sudoku Challenge: 3 - Drop impo... (1)

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Process from the http://rcomm2012.org live data mining challenge. The task was to partially solve a Sudoku puzzle by solving three subtasks. Processes 1-3 in this pack are the actual solutions to the tasks, process 0 loads the required data into your repository and process 4 is the bonus that solves the entire puzzle. IMPORTANT: Save this process as "RCOMM 2012 Sudoku Challenge: 3 - Drop impossible values (loop)" since it is included from process 4. This process uses process 2 repeatedly to ...

Created: 2012-09-04

RCOMM 2012 Sudoku Challenge: 2 - Drop impo... (1)

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Process from the http://rcomm2012.org live data mining challenge. The task was to partially solve a Sudoku puzzle by solving three subtasks. Processes 1-3 in this pack are the actual solutions to the tasks, process 0 loads the required data into your repository and process 4 is the bonus that solves the entire puzzle. IMPORTANT: Save this process as "RCOMM 2012 Sudoku Challenge: 2 - Drop impossible values" since it is included from process 3. This process eliminates impossible rows from the...

Created: 2012-09-04

RCOMM 2012 Sudoku Challenge: 1 - Generate ... (1)

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Process from the http://rcomm2012.org live data mining challenge. The task was to partially solve a Sudoku puzzle by solving three subtasks. Processes 1-3 in this pack are the actual solutions to the tasks, process 0 loads the required data into your repository and process 4 is the bonus that solves the entire puzzle. This process loads the numbers 1..9 and uses two Cartesian Product operators to compute the set of all combinations x, y, v. Finally we compute the index of the 3x3 sub-field a...

Created: 2012-09-04

RCOMM 2012 Sudoku Challenge: 0 - Get Data (1)

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Process from the http://rcomm2012.org live data mining challenge. The task was to partially solve a Sudoku puzzle by solving three subtasks. Processes 1-3 in this pack are the solutions to the actual tasks, process 0 loads the required data into your repository and process 4 is the bonus that solves the entire puzzle. This process loads the two required data sets from rapid-i.com and stores them in your repository. The first data set contains the numbers 1 to 9 and the second contains the pr...

Created: 2012-09-04

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Bonn Taverna Presentation - Case Studies

Created: 2012-09-04 10:17:41 | Last updated: 2012-09-04 13:45:55

Credits: Helen Hulme Katy Wolstencroft Paul Fisher Shoaib Sufi Mcornell Robert Haines

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: PowerPoint 2007 presentation

Comments: 0 | Viewed: 51 times | Downloaded: 41 times

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Bonn Tutorial REST services

Created: 2012-09-03 19:34:12

Credits: Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: PowerPoint presentation

Comments: 0 | Viewed: 67 times | Downloaded: 53 times

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Bonn Tutorial Different Service Types

Created: 2012-09-03 19:32:32

Credits: Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: PowerPoint presentation

Comments: 0 | Viewed: 37 times | Downloaded: 45 times

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Associate Active Regions and Filaments to ... (1)

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This workflow is querying the HEC for the fastest 100 CME of a given list (input parameter); it calculates the latitude from the postion angle; last step is to query the HFC for Active Regions and Filaments for the given time where the bounding box of the feature contains the longitude (feature must be on the correct side of the Sun.) Inputs: HEC list name (must contain fields: v, time_start, pa_width, pa) Outputs: v, time_start, pa_width, pa of the 100 fastest CME, VOTables for associated A...

Created: 2012-09-03

Credits: Anja Le Blanc

Retention Time Prediction with X!Tandem (1)

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This workflow identifies peptides from tandem mass spectra using X!Tandem as in a standard installation of the Trans-Proteomic Pipeline (TPP, version 4.6, but earlier versions should also work). The peptide-spectrum matches are validates using PeptideProphet (also from a standard installation of TPP) and peptides with at least a probability 0.95 are used to train a linear retention time predictor (Palmblad et al., 2002), whereby retention coefficients are also derived. These indirectly provid...

Created: 2012-09-03 | Last updated: 2012-09-03

Credits: Magnus Palmblad Yassene Eleni

Attributions: rt3.c

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rt3.c

Created: 2012-09-03 10:36:54 | Last updated: 2012-09-03 10:42:13

Credits: Magnus Palmblad

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Trident (Package)

Comments: 0 | Viewed: 44 times | Downloaded: 21 times

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Get completion function V / Vm using the a... (1)

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Get completion function V / Vm using the apparent magnitude list of a set of galaxies

Created: 2012-09-03 | Last updated: 2012-09-03

Credits: Julian Garrido

NCBI Protein Clustal Omega Alignment (1)

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Searches NCBI Proteins for a given organism and protein. User VMatch (xmknr) Vmatch, a versatile software tool for efficiently solving large scale sequence matching tasks to remove possible dubplcate and clustal omega to generate a multiple sequence alignment. Clustal Omega is the latest addition to the Clustal family. It offers a significant increase in scalability over previous versions, allowing hundreds of thousands of sequences to be aligned in only a few hours. It will also make u...

Created: 2012-08-31

Credits: Carol Lushbough