Workflows

Maptube mapper (2)

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Takes a URL of some spatially-aggregated data and a field/column name to map and generates a MapTube url to an online map of the data.

Created: 2010-09-22 | Last updated: 2011-01-10

Credits: Nick Malleson

Sff2Fasta_Blast_Blat_ParseBlast (1)

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Blast and Blat Roche 454 sequences against a reference database on the Dutch Life Science Grid Conversion of Roche 454 sequences to fasta Blat sequences against a database Blast sequences against a database Parse Blast results http://www.bioinformaticslaboratory.nl/  

Created: 2010-09-22 | Last updated: 2010-09-22

Credits: Barbera van Schaik Antoine van Kampen Angela Luijf Silvia Olabarriaga

Sff2Fasta_Blat (1)

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Blat Roche 454 sequences against a reference database on the Dutch Life Science Grid Conversion of Roche 454 sequences to fasta Blat sequences against a database http://www.bioinformaticslaboratory.nl/  

Created: 2010-09-22 | Last updated: 2010-09-22

Credits: Barbera van Schaik Antoine van Kampen Angela Luijf Silvia Olabarriaga

Population projection transport simulation (1)

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Neiss Transport Sim Demo. Runs a population reconstruction model (PRM) from census data, then projects the simulation through time. Also runs a transport simulation before and after the projection.

Created: 2010-09-22 | Last updated: 2010-09-22

Credits: Nick Malleson

Sff2Fasta_Blast_ParseBlast (1)

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Blast Roche 454 sequences against a reference database on the Dutch Life Science Grid Conversion of Roche 454 sequences to fasta Blast sequences against a database Parse Blast results http://www.bioinformaticslaboratory.nl/      

Created: 2010-09-22 | Last updated: 2010-09-22

Credits: Barbera van Schaik Antoine van Kampen Angela Luijf Silvia Olabarriaga

RCOMM Challenge 3: Fibonacci Numbers (Inte... (1)

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At the RComm 2010 (www.rcomm2010.org), an unusual competition was held. Titled "Who Wants to Be a Data Miner", three challenges were issued to the participants of the conference. In all challenges, participants had to design RapidMiner processes as quickly as possible. This is the original solution I had in mind for Challenge 2: "Fibonacci Numbers". It defines a macro n, recurses by applying itself using an "Embed Process" operator on n-1 and n-2, appends the results (so the length is F(n-1)...

Created: 2010-09-17 | Last updated: 2010-09-17

RCOMM Challenge 3: Fibonacci Numbers (Impr... (1)

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At the RComm 2010 (www.rcomm2010.org), an unusual competition was held. Titled "Who Wants to Be a Data Miner", three challenges were issued to the participants of the conference. In all challenges, participants had to design RapidMiner processes as quickly as possible. This is the winning process of Challenge 2: "Fibonacci Numbers" by Matko Bošnjak. This was the task: The n-th Fibonacci number is F(n)=F(n-1)+F(n-2), and F(0)=0, F(1)=1. Create a process that creates an example set with F(n)...

Created: 2010-09-17 | Last updated: 2010-09-17

RCOMM Challenge 2: Broken Iris (1)

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At the RComm 2010 (www.rcomm2010.org), an unusual competition was held. Titled "Who Wants to Be a Data Miner", three challenges were issued to the participants of the conference. In all challenges, participants had to design RapidMiner processes as quickly as possible. This is the winning process of Challenge 2: "Broken Iris" by Nico Piatkowski. This was the task: You are given a decision tree model (M) designed on the well-known Iris data set and unlabelled data (U) on which the model is t...

Created: 2010-09-17

RCOMM Challenge 2: Broken Iris (Preparation) (1)

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This workflow creates the input for the RCOMM 2010 Challenge 2. The solution and description are in workflow "RCOMM Challenge 2: Broken Iris"

Created: 2010-09-17

RCOMM Challenge 1: 99 bottles of beer (1)

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At the RComm 2010 (www.rcomm2010.org), an unusual competition was held. Titled "Who Wants to Be a Data Miner", three challenges were issued to the participants of the conference. In all challenges, participants had to design RapidMiner processes as quickly as possible. This is the winning process of Challenge 1: "99 bottles of beer" by Sebastian Land. This was the task: Design a process that produces an example set the rows of which form the lyrics of the well-known song "99 bottles of beer...

Created: 2010-09-17

BowtieToPileup (1)

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This example workflow aligns short sequencing reads to a reference genome using Bowtie and generates a SAMtools pileup file. By analysing an actual data set (SNP detection in N. vitripennis) and translating this analysis pipeline into a Taverna workflow, I was able to come up with an easy way of using Taverna for such analysis. I created a Java API (with my limited Java experience) that wraps the command line programs used in the analysis pipeline: Bowtie and some of the SAMtools. Instead of ...

Created: 2010-09-16

From PDF to lemmatized text (1)

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This workflow uses the web service stationed in JSI (IJS Slovenia), which is based on Matjaž Juršič's LemmaGen - lemmatization engine. The workflow accepts a PDF file as an input an uses James Eales's wrokflows to preprocess the data. The workflow interactively asks the user of which language is the text, since the lemmatization process is language based. The output is a string in Taverna Workbench.

Created: 2010-09-16 | Last updated: 2012-01-18

Credits: Netr James Eales

Attributions: PDF to plain text Clean plain text

retrive dpas data for all ics instruments ... (1)

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This workflow demonstrates the standard query where events for a period of time are requested from the HEC service, available instruments for this time come from the ICS and data only for the times of the events are requested from the DPAS. In this version data from only 3 random events (out of the HEC list) will be requested from the DPAS.

Created: 2010-09-14 | Last updated: 2010-09-14

Credits: Anja Le Blanc

Attributions: retrive dpas data for all ics instruments for HEC event data

retrive dpas data for all ics instruments ... (1)

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This workflow demonstrates the standard query there events for a period of time are requested from the HEC service, available instruments for this time come from the ICS and data only for the times of the events are requested from the DPAS.

Created: 2010-09-14 | Last updated: 2010-09-14

Credits: Anja Le Blanc

Attributions: Extracting data from VOTable format by using XPath query Retrieve all data for all instruments for a given periode of time

Generate percentages from absolute values (1)

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This process demonstrates how to calculate the percentages of absolute values of one data record. The process first creates an aggregation attribute SumAll and then loops over the absolute value attributes and creates a new relative attributes. Tags: relative, absolute, values, percentage, loop attributes, generate aggregation

Created: 2010-09-14 | Last updated: 2010-09-14

Example workflow for REST and XPath activi... (1)

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Note that this workflow depends upon the REST and XPath plugins. This workflow fetches weather forecast for the user-specified location. First of all it uses the provided location name to obtain a WOEID ("Where On Earth ID") of that location, then uses that unique identifier to fetch the weather forecast from Yahoo server. Multiple results may be obtained in case there is no unique translation of the location to a WOEID. REST activity is used to perform HTTP requests and fetch d...

Created: 2010-09-13 | Last updated: 2010-09-13

Credits: Sergejs Aleksejevs

Principle Component Analysis (PCA) over mi... (1)

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Principle Component Analysis (PCA) over microarray data. Data is uploaded through caGrid transfer ultility.

Created: 2010-09-10 | Last updated: 2010-09-10

Credits: Wei Tan

Multiple choice quiz (1)

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A fun example workflow showing user-interaction and service looping

Created: 2010-09-06

Credits: George

Attributions: Multiple Choice Quiz

11111 (1)

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Reads collections of text from a set of directories, assigning each directory to a class (as specified by parameter text_directories), and transforms them into a TF-IDF or other word vector. Finally, an SVM is applied to model the input texts.

Created: 2010-09-04

222 (1)

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This process shows how several different classifiers could be graphically compared by means of multiple ROC curves.

Created: 2010-09-04