All content

BLASTP with simplified results returned (1)

• Download

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

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

• Download

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

De-normalizing Dataset After K-means (1)

• Download

K-means is performed on the iris dataset. After finding the clusters, the dataset is de-normalized and the means of the different variables are calculated by cluster.

Created: 2011-10-19 | Last updated: 2011-10-19

Revisión Sistemática de Software (4)

• Download

 Workflow for sistematic software revision.

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

Credits: E3matheus

KEGG pathway to proteins (2)

• Download

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

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

• Download

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

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

• Download

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

Find orthologs using a uniprot accession (1)

• Download

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

Get homologous from NCBI homoloGene (1)

• Download

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

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

• Download

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

Spreadsheet Import - Fertilizer Use (1)

• Download

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

Broccoli Production New York State, 1960-1965 (1)

• Download

This workflow takes data about agricultural production in New Jersey and New York from 1960 -1965, to compare productivity in broccoli growing.

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

Credits: Atminer Alan Williams

Attributions: Spreadsheet Import Example

Population Plot with R (1)

• Download

This script pulls the population of every country and creates a plot of them. This is based on the script at http://www.myexperiment.org/workflows/1728.html , with a few modifications for labelling axes and the title.

Created: 2011-10-08

Credits: Atminer

Average and Standard Deviation (1)

• Download

This workflow takes in a list of values and a list name, and returns the list name, average, and standard deviation of the values.

Created: 2011-10-07 | Last updated: 2011-10-07

Credits: Atminer

Simple Python example (1)

• Download

This workflow generates a random number within the range 0 to 100. The generation is done by a python script. The workflow assumes that python is in the path.

Created: 2011-10-06 | Last updated: 2011-10-06

Credits: Alan Williams

Mapping Service (2)

• Download

This service generates a google map of a group of place names and coordinates. The workflow will accept both coordinates and place names. This workflow takes place names/coordinates from both a spreadsheet, as well as on-the-fly input of a list of coordinates or place names (please note, if no supplemental data is desired, an empty link will allow the workflow to function). The Mapping Service workflow was created to assist in generating a map of where a series of interviews took p...

Created: 2011-10-06 | Last updated: 2011-10-06

Credits: tpacurtis

Mapping Workflow - Attempt (1)

• Download

PLEASE NOTE: This is an early variation of http://www.myexperiment.org/workflows/2474.html. This workflow was abandoned as the above mentioned workflow is more streamlined. This workflow may or may not work successfully.

Created: 2011-10-06 | Last updated: 2011-10-06

Credits: tpacurtis

View Download

Data_MappingService

Created: 2011-10-06 04:36:47 | Last updated: 2011-10-06 04:36:49

Credits: tpacurtis

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet

Comments: 0 | Viewed: 52 times | Downloaded: 28 times

View Download

Mapping Service Pack

Created: 2011-10-06 04:34:31 | Last updated: 2011-10-06 04:55:05

2 items in this pack

Comments: 0 | Viewed: 38 times | Downloaded: 20 times

View Download

modified_gbk.xml

Created: 2011-10-06 04:15:08 | Last updated: 2011-10-06 04:15:09

Credits: Mutanthumb

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: XML

Comments: 0 | Viewed: 26 times | Downloaded: 614 times

This File has no tags!

Longitude with beanshell (1)

• Download

This workflow takes in a string value or list of values and pulls out longitude coordinates formatted as ###-##(N or S) using the following regular expression: \d\d\d-\d\d(E|W). The coordinates are processed and formatted to be in the form required by the web service used in my "Elevation plot" workflow. This workflow primarily contains string manipulation. For many of the text and list services used, the beanshell script needed to be modified in order to produce the formatti...

Created: 2011-10-06 | Last updated: 2011-10-06

Credits: Chrisser

Latitude with beanshell (1)

• Download

This workflow takes in a string value or list of values and pulls out latitude coordinates formatted as ##-##(N or S) using the following regular expression: \d\d-\d\d(N|S). The coordinates are processed and formatted to be in the form required by the web service used in my "Elevation plot" workflow. This workflow contains primarily string manipulation. For many of the text and list services used, the beanshell script needed to be modified in order to produce the formatting I requi...

Created: 2011-10-06 | Last updated: 2011-10-06

Credits: Chrisser

Elevation plot v.2 (2)

• Download

Functionally identical to the original. I tried to upload a version with annotation, but somehow the notes didn't make it to myExperiment. From the prior verion: This workflow accepts city and country names as user-supplied input. These value are supplied to the GetWeather webservice (http://www.webservicex.net/globalweather.asmx?WSDL), which returns an XML record of location and weather info for each recognized city. (See the uploaded photo "weather example") The XML returned fr...

Created: 2011-10-06 | Last updated: 2011-10-06

Credits: Chrisser

Get Element ID from Gzipped GenBank file (1)

• Download

This workflow gunzips a *.gbk.gz file, converts it to XML (via agavewriter) and finds the Element ID. Does not work on *.gz files larger than 10MB. I upped the JVM settings on Taverna to:         <key>VMOptions</key>         <string>-Xmx4096m -XX:MaxPermSize=1024m</string> Created my own agave.dtd to get the XPath service to work the XML file generated from the Read_GenBank_File service. You will need to ...

Created: 2011-10-06 | Last updated: 2011-10-06

Credits: Mutanthumb Alan Williams

View Download

NCBI_Entity.mod.dtd

Created: 2011-10-06 03:51:57

Credits: Mutanthumb

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Trident (Package)

Comments: 0 | Viewed: 23 times | Downloaded: 12 times

This File has no tags!