myExperiment - Workflows

Taverna 2

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Atminer

Spreadsheet Import - Fertilizer Use (1)

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This workflow takes data from a spreadsheet and creates a graph of fertilizer use in NY state from 1960-1965.

Created: 2011-10-09 | Last updated: 2011-10-09

Credits: Atminer

Attributions: Spreadsheet Import Example

Taverna 2

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Jorgejesus

WPS-GRASS-Bridge r.los example (1)

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r.los generates a raster output map in which the cells that are visible from a user-specified observer position are marked with the vertical angle (in degrees) required to see those cells (viewshed). A value of 0 is directly below the specified viewing position, 90 is due horizontal, and 180 is directly above the observer. The angle to the cell containing the viewing position is undefined and set to 180. http://grass.fbk.eu/grass62/manuals/html62_user/r.los.html

Created: 2011-10-13

Credits: Jorgejesus

Taverna 2

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Rafael C. Jimenez

Get homologous from NCBI homoloGene (1)

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Get homologous from NCBI homoloGene for a list of Refseq protein accessions. Be patient, the workflows has to bring a file around 11Mb. ftp://ftp.ncbi.nlm.nih.gov/pub/HomoloGene/README

Created: 2011-10-13 | Last updated: 2011-10-13

Credits: Rafael C. Jimenez

Taverna 2

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Rafael C. Jimenez

Find orthologs using a uniprot accession (1)

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Find orthologs based on ensembl information using as input/output uniprot accession

Created: 2011-10-14 | Last updated: 2011-10-14

Credits: Rafael C. Jimenez

Taverna 2

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Rafael C. Jimenez

Find orthologs using a list of uniprot acc... (2)

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Find orthologs based on ensembl information using as input/output uniprot accessions

Created: 2011-10-14 | Last updated: 2014-06-03

Credits: Rafael C. Jimenez

Taverna 2

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Rafael C. Jimenez

Get homologous from NCBI homoloGene using ... (1)

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Get homologous from NCBI homoloGene for one UniProt protein accession. Use PICR to convert UniProt to RefSeq, get homologous from homoloGene and convert RefSeq results to UniProt. Be patient, the workflows has to bring a file around 11Mb. ftp://ftp.ncbi.nlm.nih.gov/pub/HomoloGene/README

Created: 2011-10-14 | Last updated: 2011-10-14

Credits: Rafael C. Jimenez

Taverna 2

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Rafael C. Jimenez

Get homologous from NCBI homoloGene using ... (1)

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Get homologous from NCBI homoloGene for a lsit of UniProt protein accession. Use PICR to convert UniProt to RefSeq, get homologous from homoloGene and convert RefSeq results to UniProt. Be patient, the workflows has to bring a file around 11Mb. ftp://ftp.ncbi.nlm.nih.gov/pub/HomoloGene/README

Created: 2011-10-14 | Last updated: 2011-10-27

Credits: Rafael C. Jimenez

Taverna 2

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Luke McCarthy

KEGG pathway to proteins (2)

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Get various information about the proteins in a KEGG pathway. Demonstrates integrating SADI services with non-SADI services.

Created: 2011-10-17 | Last updated: 2011-10-18

Taverna 2

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E3matheus

RevisiÃ³n SistemÃ¡tica de Software (4)

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Workflow for sistematic software revision.

Created: 2011-10-18 | Last updated: 2011-12-12

Credits: E3matheus

Taverna 2

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Rafael C. Jimenez

Get homologous from an NCBI homoloGene.dat... (1)

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Get homologous from NCBI homoloGene for a lsit of UniProt protein accession. This workflow is useful if you have a long list of protein accessions. Use PICR to convert UniProt to RefSeq, get homologous from homoloGene and convert RefSeq results to UniProt. Be patient, the workflows has to bring a file around 11Mb. ftp://ftp.ncbi.nlm.nih.gov/pub/HomoloGene/README

Created: 2011-10-20 | Last updated: 2011-10-27

Credits: Rafael C. Jimenez

Taverna 2

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Halima alshabani

BLASTP with simplified results returned (1)

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Perform a blastp search on protein sequence and extract information based on the user input, e.g. a list of GI numbers.

Created: 2011-10-25 | Last updated: 2011-10-25

Credits: Halima alshabani

Taverna 2

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Jorgejesus

r.stats workflow for pixel statistics (1)

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r.stats operation for image. Output will group pixels by: DN, total area, relative %. This worflow is used inside the ice Class exampel as a nested workflow

Created: 2011-11-02 | Last updated: 2011-11-02

Credits: Jorgejesus

Taverna 2

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Jorgejesus

date filter for ice Class Map service (NERSC) (1)

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Workflow to filter available dates with ice classification images. Service provided by NERCS. Dates are filtered using a simple regular expression

Created: 2011-11-02 | Last updated: 2011-11-04

Credits: Jorgejesus

Taverna 2

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Jorgejesus

Ice Class Map pixel analysis (NERSC) (1)

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NERSC ice classification workflow. Avaible images for a specific date will be fecthed from the WPS service, and their color table changed to allow for a user to easly identify specific areas. Statistical analysis also run using the r.stats module. Worflow uses a list of image, the list will flow thru the workflow for process resulting in mutiple outputs

Created: 2011-11-02 | Last updated: 2011-11-02

Credits: Jorgejesus

Taverna 2

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Susana

Propagation of physical quantities in the ... (3)

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This workflow takes as input a file for each of this properties: J2000 Coordinates, velocity, galactic extinction, log of axis ratio, and the Total B-magnitude. With this properties it calculates the distance of the galaxy and, in other hand, the total apparent corrected B-magnitude. It takes account if the velocity of the galaxy is lower than a threshold (1000km/s), it can not be possible to calculate the distance so, in those cases the distance will be "NaN". At the end, it calculates the ...

Created: 2011-11-30 | Last updated: 2013-04-22

Taverna 2

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Susana

Gathering galaxy properties using HyperLEDA (2)

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The user provides an ASCII text file with a list of galaxy names, and the workflow queries the HyperLEDA database and parses the response with the help of regular expressions included in simple Python scripts. The result of the workflow is a series of ASCII text files with the values of the equatorial coordinates in J2000 epoch, the velocities in km/s, the dust extinction coefficient Ag, the axis ratio of the isophote 25 mag/arcsec2 logr25 and the apparent total B magnitude BT. The performanc...

Created: 2011-11-30 | Last updated: 2013-03-08

Taverna 2

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Susana

Comparison and update values (1)

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This workflow receives two files, the name of a table and the name of a field as input. One of the file should be contain a list of old values (name galaxy and value), and the other one should be a list of new values (name galaxy,value) The workflow makes a comparison between the two files. This comparison will be a list of 7 columns: name of the galaxy, old value, old error, new value, new error, difference of value, difference of error. In other hand, this workflow makes a sql script with ...

Created: 2011-11-30 | Last updated: 2011-11-30

Taverna 2

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Marco Roos

Match concept profiles (6)

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Purpose of workflow: The workflow can be used to match a set of concept profiles with another set of concept profiles. Result: A list of concepts ordered by their match to the query concept profiles.